Tandem Repeats Finder Program written by:
Gary Benson
Department of Biomathematical Sciences
Mount Sinai School of Medicine
Version 4.00
Sequence: NFA 2003-09-04
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 6021225
ACGTcount: A:0.15, C:0.35, G:0.35, T:0.15
File 7 of 7
Found at i:4460948 original size:61 final size:59
Alignment explanation
Indices: 4460784--4460995 Score: 168
Period size: 61 Copynumber: 3.5 Consensus size: 59
4460774 GACATTACAA
* ** *
4460784 GGGCTCATCCCCGCGTGCGCGGGGAGCACCGCACGGTGTACCG-CCGCGCCTGAGTGGCTGG
1 GGGCTCATCCCCGCGTGCGCGGGGAGCACCCCACGG-G-AATGTCCGCGCCT-AGTGGATGG
* * *
4460845 GGGCTCATCCCCGCGTGCGCGGGGAGCA--CTA-GCGGATCATGTCCGACTCCT-TTGGATAGAG
1 GGGCTCATCCCCGCGTGCGCGGGGAGCACCCCACG-GGA--ATGTCCG-CGCCTAGTGGAT-G-G
* * *
4460906 GGGCTCATCCCCGCGTGCGCGGGGAGCACCCCACGGGAATGTCCTCGCCCT-GCGGCA-GCCT
1 GGGCTCATCCCCGCGTGCGCGGGGAGCACCCCACGGGAATGTCCGCG-CCTAGTGG-ATG--G
4460967 GGGCTCATCCCCGCGTGCGCGGGGAGCAC
1 GGGCTCATCCCCGCGTGCGCGGGGAGCAC
4460996 ACTTCCTGAC
Statistics
Matches: 124, Mismatches: 14, Indels: 26
0.76 0.09 0.16
Matches are distributed among these distances:
57 1 0.01
58 2 0.02
59 7 0.06
60 6 0.05
61 101 0.81
62 1 0.01
63 5 0.04
64 1 0.01
ACGTcount: A:0.12, C:0.36, G:0.37, T:0.15
Consensus pattern (59 bp):
GGGCTCATCCCCGCGTGCGCGGGGAGCACCCCACGGGAATGTCCGCGCCTAGTGGATGG
Found at i:4469011 original size:14 final size:14
Alignment explanation
Indices: 4468988--4469026 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
4468978 CGCGCGTGGT
* *
4468988 GGATCCGGCGGGTC
1 GGATCAGGCGGATC
4469002 GGATCAGGC-GATC
1 GGATCAGGCGGATC
4469015 GGATCAGGCGGA
1 GGATCAGGCGGA
4469027 GACGAGCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.18, C:0.23, G:0.46, T:0.13
Consensus pattern (14 bp):
GGATCAGGCGGATC
Found at i:4479164 original size:15 final size:15
Alignment explanation
Indices: 4479142--4479178 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
4479132 ACGGCGTGGT
4479142 GGGC-GCGTTCTCCG
1 GGGCGGCGTTCTCCG
4479156 GGGCGGCGTTCTCCG
1 GGGCGGCGTTCTCCG
4479171 GGGCGGCG
1 GGGCGGCG
4479179 GGCGGCGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.00, C:0.32, G:0.51, T:0.16
Consensus pattern (15 bp):
GGGCGGCGTTCTCCG
Found at i:4489077 original size:18 final size:19
Alignment explanation
Indices: 4489054--4489091 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
4489044 ACTCCTCGTA
4489054 GAACTCGAAA-GACCCGGC
1 GAACTCGAAACGACCCGGC
4489072 GAACTCGAAACGACCCGGC
1 GAACTCGAAACGACCCGGC
4489091 G
1 G
4489092 CCGGGGGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.32, C:0.34, G:0.29, T:0.05
Consensus pattern (19 bp):
GAACTCGAAACGACCCGGC
Found at i:4509884 original size:21 final size:21
Alignment explanation
Indices: 4509860--4509899 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4509850 CCACCGACGA
*
4509860 CGAGCTGGGCGCGCGGCTGGT
1 CGAGCTGAGCGCGCGGCTGGT
*
4509881 CGAGGTGAGCGCGCGGCTG
1 CGAGCTGAGCGCGCGGCTG
4509900 TGCGGACTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.28, G:0.53, T:0.12
Consensus pattern (21 bp):
CGAGCTGAGCGCGCGGCTGGT
Found at i:4545890 original size:15 final size:15
Alignment explanation
Indices: 4545870--4545923 Score: 99
Period size: 15 Copynumber: 3.6 Consensus size: 15
4545860 GGGTATGGCT
4545870 CTGCCCCGCCGGAAC
1 CTGCCCCGCCGGAAC
4545885 CTGCCCCGCCGGAAC
1 CTGCCCCGCCGGAAC
4545900 CTGCCCCGCCGGAAC
1 CTGCCCCGCCGGAAC
*
4545915 CTGCTCCGC
1 CTGCCCCGC
4545924 GTCGCCGCCG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.11, C:0.54, G:0.26, T:0.09
Consensus pattern (15 bp):
CTGCCCCGCCGGAAC
Found at i:4558064 original size:36 final size:36
Alignment explanation
Indices: 4557965--4558231 Score: 302
Period size: 36 Copynumber: 7.4 Consensus size: 36
4557955 AGTGCGGTCA
* * * * *
4557965 CGACCGGCTGAGCGGGCACGACGGGTTGGGCGGGCG
1 CGACCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
* ** * * * *
4558001 CGGCCGAATGGGCGGGCACGACGGGTTGGCCGGGCC
1 CGACCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
*
4558037 CGATCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
1 CGACCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
* * *
4558073 TGGCCAGCTGAGCGGACGCGACCGGTTGGCCGGGCC
1 CGACCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
* *
4558109 TGGCCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
1 CGACCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
* * * *
4558145 TGGCCGGCTGAGCGGGCACGACCGGTTGGCCGGGCC
1 CGACCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
* *
4558181 C-AGCCGGCTGAGCGGACACGACCGGTTGGCCGGGCA
1 CGA-CCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
4558217 CGACCGGCTGAGCGG
1 CGACCGGCTGAGCGG
4558232 GCGCCGGTTG
Statistics
Matches: 204, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
36 203 1.00
37 1 0.00
ACGTcount: A:0.11, C:0.32, G:0.47, T:0.10
Consensus pattern (36 bp):
CGACCGGCTGAGCGGACGCGACCGGTTGGCCGGGCC
Found at i:4576385 original size:18 final size:18
Alignment explanation
Indices: 4576362--4576398 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4576352 ACCCGCTCGC
4576362 GTCGCTCATGCAGTGCAG
1 GTCGCTCATGCAGTGCAG
4576380 GTCGCTCATGCAGTGCAG
1 GTCGCTCATGCAGTGCAG
4576398 G
1 G
4576399 ATAGCCGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.27, G:0.35, T:0.22
Consensus pattern (18 bp):
GTCGCTCATGCAGTGCAG
Found at i:4588193 original size:30 final size:30
Alignment explanation
Indices: 4588159--4588224 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
4588149 GCTCGGTCGT
4588159 GATCGATCTCCCCGATCCGTTCGGCGATGA
1 GATCGATCTCCCCGATCCGTTCGGCGATGA
4588189 GATCGATCTCCCCGATCCGTTCGGCGATGA
1 GATCGATCTCCCCGATCCGTTCGGCGATGA
*
4588219 GTTCGA
1 GATCGA
4588225 CGACTCGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.17, C:0.32, G:0.27, T:0.24
Consensus pattern (30 bp):
GATCGATCTCCCCGATCCGTTCGGCGATGA
Found at i:4599209 original size:18 final size:18
Alignment explanation
Indices: 4599183--4599222 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4599173 AAACTCGACA
4599183 CCGACGCGG-CCGGCCTCG
1 CCGACGCGGCCCGG-CTCG
*
4599201 CCGAGGCGGCCCGGCTCG
1 CCGACGCGGCCCGGCTCG
4599219 CCGA
1 CCGA
4599223 ACAGGCCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.07, C:0.47, G:0.40, T:0.05
Consensus pattern (18 bp):
CCGACGCGGCCCGGCTCG
Found at i:4600200 original size:12 final size:12
Alignment explanation
Indices: 4600183--4600207 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4600173 CCGCGGAACT
4600183 CGCCGACGCGGC
1 CGCCGACGCGGC
4600195 CGCCGACGCGGC
1 CGCCGACGCGGC
4600207 C
1 C
4600208 CGGGAAGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.52, G:0.40, T:0.00
Consensus pattern (12 bp):
CGCCGACGCGGC
Found at i:4632084 original size:16 final size:16
Alignment explanation
Indices: 4632039--4632119 Score: 81
Period size: 16 Copynumber: 5.1 Consensus size: 16
4632029 CGTGTTCGAG
* *
4632039 AACGTGCTGGGATGTC
1 AACGTGCCGAGATGTC
* *
4632055 AACGTGCTGGGATGTC
1 AACGTGCCGAGATGTC
4632071 AACGTGCCGAGATGTC
1 AACGTGCCGAGATGTC
** *
4632087 GCCGTGCCGAGATGTG
1 AACGTGCCGAGATGTC
* *
4632103 AACGGGTCGAGATGTC
1 AACGTGCCGAGATGTC
4632119 A
1 A
4632120 CCGATCGTGC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 55 1.00
ACGTcount: A:0.21, C:0.21, G:0.37, T:0.21
Consensus pattern (16 bp):
AACGTGCCGAGATGTC
Found at i:4645263 original size:76 final size:76
Alignment explanation
Indices: 4645137--4645283 Score: 294
Period size: 76 Copynumber: 1.9 Consensus size: 76
4645127 AGGCTCTCCA
4645137 CATCAGCCCGAGCGGGGACGCCCTCCGCGGCCACACTCCGCTCCCACTCCGGGCGCTGACCCCGC
1 CATCAGCCCGAGCGGGGACGCCCTCCGCGGCCACACTCCGCTCCCACTCCGGGCGCTGACCCCGC
4645202 TCAGGCAGTTC
66 TCAGGCAGTTC
4645213 CATCAGCCCGAGCGGGGACGCCCTCCGCGGCCACACTCCGCTCCCACTCCGGGCGCTGACCCCGC
1 CATCAGCCCGAGCGGGGACGCCCTCCGCGGCCACACTCCGCTCCCACTCCGGGCGCTGACCCCGC
4645278 TCAGGC
66 TCAGGC
4645284 GATGCGGCGG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.13, C:0.48, G:0.28, T:0.11
Consensus pattern (76 bp):
CATCAGCCCGAGCGGGGACGCCCTCCGCGGCCACACTCCGCTCCCACTCCGGGCGCTGACCCCGC
TCAGGCAGTTC
Found at i:4664355 original size:16 final size:15
Alignment explanation
Indices: 4664313--4664644 Score: 166
Period size: 16 Copynumber: 21.3 Consensus size: 15
4664303 TCGCCTCGGC
4664313 GCACCG-CCTGATTCG
1 GCACCGTCCTGA-TCG
* *
4664328 GCA-TGACCTGATCGG
1 GCACCGTCCTGATC-G
4664343 GCACCGTCCTGATTCG
1 GCACCGTCCTGA-TCG
*
4664359 GCACAGTCCTGATTCG
1 GCACCGTCCTGA-TCG
* *
4664375 GCGCGGTCCTGATCCG
1 GCACCGTCCTGAT-CG
4664391 GCACCGTCCTGATTCG
1 GCACCGTCCTGA-TCG
* *
4664407 GCGCGGTCCTGATCCG
1 GCACCGTCCTGAT-CG
* * *
4664423 GGATCGTCCTGGTCG
1 GCACCGTCCTGATCG
* *
4664438 GCGCAGTCCTGATCCG
1 GCACCGTCCTGAT-CG
** *
4664454 GGGCCGTCCTGAACG
1 GCACCGTCCTGATCG
*
4664469 GCACGGTCCTGATCCG
1 GCACCGTCCTGAT-CG
** *
4664485 GGGCCGTCCTGGTCG
1 GCACCGTCCTGATCG
*
4664500 GCACGGTCCTGATCCG
1 GCACCGTCCTGAT-CG
** *
4664516 GGGCCGTCCTGAACG
1 GCACCGTCCTGATCG
*
4664531 GCACGGTCCTGATCCG
1 GCACCGTCCTGAT-CG
** *
4664547 GGGCCGTCCTGAACG
1 GCACCGTCCTGATCG
*
4664562 GCACAGTCCTGATCCAG
1 GCACCGTCCTGAT-C-G
*
4664579 GC-CGGTCCTGATCG
1 GCACCGTCCTGATCG
* * *
4664593 ACACCGCCCAGATCCG
1 GCACCGTCCTGAT-CG
* * *
4664609 GCACAGCCCAGATCCG
1 GCACCGTCCTGAT-CG
* *
4664625 GCACGGCCCTGACTCG
1 GCACCGTCCTGA-TCG
4664641 GCAC
1 GCAC
4664645 GACTCAGCCC
Statistics
Matches: 241, Mismatches: 60, Indels: 31
0.73 0.18 0.09
Matches are distributed among these distances:
14 5 0.02
15 76 0.32
16 153 0.63
17 7 0.03
ACGTcount: A:0.14, C:0.37, G:0.32, T:0.18
Consensus pattern (15 bp):
GCACCGTCCTGATCG
Found at i:4664447 original size:31 final size:31
Alignment explanation
Indices: 4664334--4664592 Score: 295
Period size: 31 Copynumber: 8.3 Consensus size: 31
4664324 TTCGGCATGA
* * ** *
4664334 CCTGATCGGGCACCGTCCTGATTCGGCACAGT
1 CCTGATC-GGCACGGTCCTGATCCGGGGCCGT
* **
4664366 CCTGATTCGGCGCGGTCCTGATCCGGCACCGT
1 CCTGA-TCGGCACGGTCCTGATCCGGGGCCGT
* **
4664398 CCTGATTCGGCGCGGTCCTGATCCGGGATCGT
1 CCTGA-TCGGCACGGTCCTGATCCGGGGCCGT
* * *
4664430 CCTGGTCGGCGCAGTCCTGATCCGGGGCCGT
1 CCTGATCGGCACGGTCCTGATCCGGGGCCGT
*
4664461 CCTGAACGGCACGGTCCTGATCCGGGGCCGT
1 CCTGATCGGCACGGTCCTGATCCGGGGCCGT
*
4664492 CCTGGTCGGCACGGTCCTGATCCGGGGCCGT
1 CCTGATCGGCACGGTCCTGATCCGGGGCCGT
*
4664523 CCTGAACGGCACGGTCCTGATCCGGGGCCGT
1 CCTGATCGGCACGGTCCTGATCCGGGGCCGT
* * *
4664554 CCTGAACGGCACAGTCCTGATCC-AGGCCGGT
1 CCTGATCGGCACGGTCCTGATCCGGGGCC-GT
4664585 CCTGATCG
1 CCTGATCG
4664593 ACACCGCCCA
Statistics
Matches: 204, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.02
31 139 0.68
32 59 0.29
33 2 0.01
ACGTcount: A:0.12, C:0.35, G:0.34, T:0.20
Consensus pattern (31 bp):
CCTGATCGGCACGGTCCTGATCCGGGGCCGT
Found at i:4679897 original size:33 final size:33
Alignment explanation
Indices: 4679859--4680044 Score: 152
Period size: 33 Copynumber: 5.6 Consensus size: 33
4679849 TGGGCGGCCA
* *
4679859 CCGCCAAGGAACGCAGCGCCGCCCTCGCCGCGG
1 CCGCCAAGGAACGCAGCGCCGCCCTGGCCGCCG
* **
4679892 CCGCCAAGGAACG-GGCGGTGCCGCTGGCCGCCG
1 CCGCCAAGGAACGCAGCGCCGCC-CTGGCCGCCG
* * * *
4679925 CCGCCAAGGAGCGCACCGCTC-CGCTGGCC-CTG
1 CCGCCAAGGAACGCAGCGC-CGCCCTGGCCGCCG
* *
4679957 ACCGCCAAGGAACGCAGCGCCGTCCTGGCCG-AG
1 -CCGCCAAGGAACGCAGCGCCGCCCTGGCCGCCG
*
4679990 CGCGCCAAGGAACGC-G-GCACGCCGCTGG-CGCTCA
1 C-CGCCAAGGAACGCAGCGC-CGCC-CTGGCCGC-CG
4680024 CCGCCAAGGAACGCAGCGCCG
1 CCGCCAAGGAACGCAGCGCCG
4680045 TGCTCGCCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
31 2 0.02
32 16 0.13
33 93 0.78
34 7 0.06
35 2 0.02
ACGTcount: A:0.17, C:0.43, G:0.35, T:0.05
Consensus pattern (33 bp):
CCGCCAAGGAACGCAGCGCCGCCCTGGCCGCCG
Found at i:4679969 original size:99 final size:99
Alignment explanation
Indices: 4679858--4680038 Score: 251
Period size: 99 Copynumber: 1.8 Consensus size: 99
4679848 GTGGGCGGCC
* **
4679858 ACCGCCAAGGAACGCAGCGCCGCCCTCGCCGCG-GCCGCCAAGGAACG-GGCGGTGCCGCTGGCC
1 ACCGCCAAGGAACGCAGCGCCGCCCTCGCCGAGCG-CGCCAAGGAACGCGGC-ACGCCGCTGG-C
* *
4679921 GC-CGCCGCCAAGGAGCGCACCGCTCCGCTGGCCCTG
63 GCTCACCGCCAAGGAACGCACCGCTCCGCTGGCCCTG
* *
4679957 ACCGCCAAGGAACGCAGCGCCGTCCTGGCCGAGCGCGCCAAGGAACGCGGCACGCCGCTGGCGCT
1 ACCGCCAAGGAACGCAGCGCCGCCCTCGCCGAGCGCGCCAAGGAACGCGGCACGCCGCTGGCGCT
4680022 CACCGCCAAGGAACGCA
66 CACCGCCAAGGAACGCA
4680039 GCGCCGTGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
98 3 0.04
99 65 0.90
100 4 0.06
ACGTcount: A:0.18, C:0.43, G:0.34, T:0.06
Consensus pattern (99 bp):
ACCGCCAAGGAACGCAGCGCCGCCCTCGCCGAGCGCGCCAAGGAACGCGGCACGCCGCTGGCGCT
CACCGCCAAGGAACGCACCGCTCCGCTGGCCCTG
Found at i:4679985 original size:66 final size:66
Alignment explanation
Indices: 4679926--4680070 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 66
4679916 TGGCCGCCGC
* * * *
4679926 CGCCAAGGAGCGCACCGCTCCGCTGGCCCTGACCGCCAAGGAACGCAGCGCCGTCCTGGCCGAGC
1 CGCCAAGGAACGCACCACGCCGCTGGCCCTCACCGCCAAGGAACGCAGCGCCGTCCTGGCCGAGC
4679991 G
66 G
** * * * *
4679992 CGCCAAGGAACGCGGCACGCCGCTGGCGCTCACCGCCAAGGAACGCAGCGCCGTGCTCGCCGAAC
1 CGCCAAGGAACGCACCACGCCGCTGGCCCTCACCGCCAAGGAACGCAGCGCCGTCCTGGCCGAGC
4680057 G
66 G
* *
4680058 GGCGAAGGAACGC
1 CGCCAAGGAACGC
4680071 GGTGCGGAAC
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.19, C:0.40, G:0.34, T:0.06
Consensus pattern (66 bp):
CGCCAAGGAACGCACCACGCCGCTGGCCCTCACCGCCAAGGAACGCAGCGCCGTCCTGGCCGAGC
G
Found at i:4680071 original size:66 final size:66
Alignment explanation
Indices: 4679945--4680072 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
4679935 GCGCACCGCT
* * *
4679945 CCGCTGGCCCTGACCGCCAAGGAACGCAGCGCCGTCCTGGCCGAGCGCGCCAAGGAACGCGGCAC
1 CCGCTGGCCCTCACCGCCAAGGAACGCAGCGCCGTCCTCGCCGAACGCGCCAAGGAACGCGGCAC
4680010 G
66 G
* * * *
4680011 CCGCTGGCGCTCACCGCCAAGGAACGCAGCGCCGTGCTCGCCGAACGGGCGAAGGAACGCGG
1 CCGCTGGCCCTCACCGCCAAGGAACGCAGCGCCGTCCTCGCCGAACGCGCCAAGGAACGCGG
4680073 TGCGGAACTG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.19, C:0.39, G:0.36, T:0.06
Consensus pattern (66 bp):
CCGCTGGCCCTCACCGCCAAGGAACGCAGCGCCGTCCTCGCCGAACGCGCCAAGGAACGCGGCAC
G
Found at i:4680087 original size:33 final size:33
Alignment explanation
Indices: 4679963--4680140 Score: 114
Period size: 33 Copynumber: 5.4 Consensus size: 33
4679953 CCTGACCGCC
* ** * *
4679963 AAGGAACGCAGCGCCGTCCTGGCCGAGCGCGCC
1 AAGGAACGCGGCGCCGAACTGGCCGAACGCGCG
** *
4679996 AAGGAACGCGGCACGCCG--CTGGCGCTCAC-CGCC
1 AAGGAACGCGG--CGCCGAACTGGC-CGAACGCGCG
* ** * *
4680029 AAGGAACGCAGCGCCGTGCTCGCCGAACGGGCG
1 AAGGAACGCGGCGCCGAACTGGCCGAACGCGCG
* *
4680062 AAGGAACGCGGTGCGGAACTGGCCGACACCGCGCG
1 AAGGAACGCGGCGCCGAACTGGCCGA-A-CGCGCG
** *
4680097 --GGTGCGCGGCGCCGAACTGGCCGAACTCGCG
1 AAGGAACGCGGCGCCGAACTGGCCGAACGCGCG
4680128 AAGGAACGCGGCG
1 AAGGAACGCGGCG
4680141 ACGAGTTCGC
Statistics
Matches: 111, Mismatches: 24, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
31 10 0.09
32 4 0.04
33 84 0.76
34 3 0.03
35 10 0.09
ACGTcount: A:0.20, C:0.35, G:0.39, T:0.06
Consensus pattern (33 bp):
AAGGAACGCGGCGCCGAACTGGCCGAACGCGCG
Found at i:4680171 original size:33 final size:33
Alignment explanation
Indices: 4680134--4680239 Score: 133
Period size: 33 Copynumber: 3.2 Consensus size: 33
4680124 CGCGAAGGAA
4680134 CGCGGCGAC-GAGTTCGCCGACGTGGCCAAGCAC
1 CGCGGCG-CGGAGTTCGCCGACGTGGCCAAGCAC
** * *
4680167 CGCGGCGCGGAGTGGGCCGACCTCGCCAAGCAC
1 CGCGGCGCGGAGTTCGCCGACGTGGCCAAGCAC
* **
4680200 CGCGGCGCGGAATTCGGTGACGTGGCCAAGCAC
1 CGCGGCGCGGAGTTCGCCGACGTGGCCAAGCAC
4680233 CGCGGCG
1 CGCGGCG
4680240 TCGAATGGGC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 1 0.02
33 60 0.98
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (33 bp):
CGCGGCGCGGAGTTCGCCGACGTGGCCAAGCAC
Found at i:4680171 original size:66 final size:65
Alignment explanation
Indices: 4680101--4680252 Score: 173
Period size: 66 Copynumber: 2.3 Consensus size: 65
4680091 CGCGCGGGTG
* * *
4680101 CGCGGCGCCGAACT-GGCCGAACTCGCGAAGGAACGCGGCGAC-GAGTTCGCCGACGTGGCCAAG
1 CGCGGCG-CGAA-TGGGCCGAACTCGCCAAGCAACGCGGCG-CGGAATTCGCCGACGTGGCCAAG
4680164 CAC
63 CAC
* * * **
4680167 CGCGGCGCGGAGTGGGCCGACCTCGCCAAGCACCGCGGCGCGGAATTCGGTGACGTGGCCAAGCA
1 CGCGGCGC-GAATGGGCCGAACTCGCCAAGCAACGCGGCGCGGAATTCGCCGACGTGGCCAAGCA
4680232 C
65 C
4680233 CGCGGCGTCGAATGGGCCGA
1 CGCGGCG-CGAATGGGCCGA
4680253 GGCGGCGCGC
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
65 3 0.04
66 69 0.95
67 1 0.01
ACGTcount: A:0.18, C:0.34, G:0.39, T:0.09
Consensus pattern (65 bp):
CGCGGCGCGAATGGGCCGAACTCGCCAAGCAACGCGGCGCGGAATTCGCCGACGTGGCCAAGCAC
Found at i:4680581 original size:26 final size:26
Alignment explanation
Indices: 4680531--4680581 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4680521 GGCCGCGGTC
*
4680531 GCACCCGCCGACCGCGGCGCCGCGCT
1 GCACCCGCCGACCGCGGCACCGCGCT
*
4680557 GCACGCCGCCG-CCGCGGCACTGCGC
1 GCAC-CCGCCGACCGCGGCACCGCGC
4680582 GACCGGGCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.08, C:0.53, G:0.35, T:0.04
Consensus pattern (26 bp):
GCACCCGCCGACCGCGGCACCGCGCT
Found at i:4681802 original size:21 final size:22
Alignment explanation
Indices: 4681776--4681818 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4681766 TCCTCAGTGC
4681776 TCACC-GTTTTCGGCACGGCGG
1 TCACCGGTTTTCGGCACGGCGG
4681797 TCACCGGTTTTCGGCACGGCGG
1 TCACCGGTTTTCGGCACGGCGG
4681819 GCCGGGCGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.09, C:0.33, G:0.35, T:0.23
Consensus pattern (22 bp):
TCACCGGTTTTCGGCACGGCGG
Found at i:4690241 original size:14 final size:14
Alignment explanation
Indices: 4690224--4690274 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
4690214 CTGCGGGCAA
4690224 GGCACCGCGGGTAG
1 GGCACCGCGGGTAG
4690238 GGCACCGCGGGTAG
1 GGCACCGCGGGTAG
* *
4690252 GGCACCGCCGGTAA
1 GGCACCGCGGGTAG
*
4690266 GACACCGCG
1 GGCACCGCG
4690275 ACCGGACAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.18, C:0.33, G:0.43, T:0.06
Consensus pattern (14 bp):
GGCACCGCGGGTAG
Found at i:4690247 original size:28 final size:28
Alignment explanation
Indices: 4690216--4690274 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
4690206 GTAGGACGCT
* * *
4690216 GCGGGCAAGGCACCGCGGGTAGGGCACC
1 GCGGGCAAGGCACCGCCGGTAAGACACC
* *
4690244 GCGGGTAGGGCACCGCCGGTAAGACACC
1 GCGGGCAAGGCACCGCCGGTAAGACACC
4690272 GCG
1 GCG
4690275 ACCGGACAGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.19, C:0.32, G:0.44, T:0.05
Consensus pattern (28 bp):
GCGGGCAAGGCACCGCCGGTAAGACACC
Found at i:4699418 original size:75 final size:75
Alignment explanation
Indices: 4699295--4699489 Score: 347
Period size: 75 Copynumber: 2.6 Consensus size: 75
4699285 ACACACTCGA
*
4699295 CTGAGCGGATGCGGCCGGAGGCGGCAGCGCAGCGTCACCACGCAGGCCGCCCGCTCAGGCGACGA
1 CTGAGCGGTTGCGGCCGGAGGCGGCAGCGCAGCGTCACCACGCAGGCCGCCCGCTCAGGCGACGA
4699360 ACGACACAGC
66 ACGACACAGC
* *
4699370 CTGAGCGGTTGCGGCCGGAGGCGGTAGCGCAGCGTCACCACGGAGGCCGCCCGCTCAGGCGACGA
1 CTGAGCGGTTGCGGCCGGAGGCGGCAGCGCAGCGTCACCACGCAGGCCGCCCGCTCAGGCGACGA
4699435 ACGACACAGC
66 ACGACACAGC
*
4699445 CTGAGCGGTTGCGGCCGGAGGCGGCAGCGCAGCGTCAGC-CGCAGG
1 CTGAGCGGTTGCGGCCGGAGGCGGCAGCGCAGCGTCACCACGCAGG
4699490 TCGGCGTTTC
Statistics
Matches: 114, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
74 5 0.04
75 109 0.96
ACGTcount: A:0.18, C:0.35, G:0.40, T:0.07
Consensus pattern (75 bp):
CTGAGCGGTTGCGGCCGGAGGCGGCAGCGCAGCGTCACCACGCAGGCCGCCCGCTCAGGCGACGA
ACGACACAGC
Found at i:4711539 original size:18 final size:18
Alignment explanation
Indices: 4711515--4711571 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
4711505 GGGCGCGGGG
4711515 CGGGGCACAGCGGGGGCA
1 CGGGGCACAGCGGGGGCA
*
4711533 TGGGGCACAGCGGGGGCA
1 CGGGGCACAGCGGGGGCA
* *
4711551 CGGGGCCCGGCGGGGGCA
1 CGGGGCACAGCGGGGGCA
4711569 CGG
1 CGG
4711572 AGTTCGGCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.12, C:0.28, G:0.58, T:0.02
Consensus pattern (18 bp):
CGGGGCACAGCGGGGGCA
Found at i:4720707 original size:18 final size:18
Alignment explanation
Indices: 4720679--4720717 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4720669 CGGGGCGCCG
4720679 CGCTGGCCGAGCCGCTGAC
1 CGCTGGCCGAGCCGCTG-C
*
4720698 CGCT-GCCGAGGCGCTGC
1 CGCTGGCCGAGCCGCTGC
4720715 CGC
1 CGC
4720718 GCTTCGACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.08, C:0.44, G:0.38, T:0.10
Consensus pattern (18 bp):
CGCTGGCCGAGCCGCTGC
Found at i:4752114 original size:15 final size:15
Alignment explanation
Indices: 4752091--4752125 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4752081 ATCCTTCGTA
4752091 CGCGGGCCGTCGGTG
1 CGCGGGCCGTCGGTG
*
4752106 CGCGTGCCGTCGGTG
1 CGCGGGCCGTCGGTG
4752121 CGCGG
1 CGCGG
4752126 CCACGGTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.34, G:0.51, T:0.14
Consensus pattern (15 bp):
CGCGGGCCGTCGGTG
Found at i:4758106 original size:27 final size:27
Alignment explanation
Indices: 4758037--4758109 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
4758027 CGGCATCCGC
* * *
4758037 CGGCAGCGCCCCGGCAGCGGGTGACAT
1 CGGCACCGCTCCGGCGGCGGGTGACAT
4758064 CGGCACCGCTCCGGCGGCGGGTGACAT
1 CGGCACCGCTCCGGCGGCGGGTGACAT
4758091 CGGCACCGCTCCGGCGGCG
1 CGGCACCGCTCCGGCGGCG
4758110 ACCGAGGCCG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.11, C:0.40, G:0.41, T:0.08
Consensus pattern (27 bp):
CGGCACCGCTCCGGCGGCGGGTGACAT
Found at i:4758170 original size:15 final size:15
Alignment explanation
Indices: 4758152--4758207 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
4758142 GGCAGCCACG
4758152 GCCGCCTCGGCCGAC
1 GCCGCCTCGGCCGAC
**
4758167 GCCGCCTCGAACGAC
1 GCCGCCTCGGCCGAC
* * * *
4758182 GCCGGCACGTCCGAT
1 GCCGCCTCGGCCGAC
4758197 GCCGCCTCGGC
1 GCCGCCTCGGC
4758208 AACCGGGAGC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.11, C:0.48, G:0.32, T:0.09
Consensus pattern (15 bp):
GCCGCCTCGGCCGAC
Found at i:4758850 original size:21 final size:21
Alignment explanation
Indices: 4758824--4758888 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
4758814 GAAGTCGGCC
*
4758824 GCCGCGACGGCCGAGACCG-G
1 GCCGCGACGGCCGACACCGCG
* *
4758844 TGCCGCGACCGCCGACCCCGCG
1 -GCCGCGACGGCCGACACCGCG
* *
4758866 GCCGCGACGGCCGATACCCCG
1 GCCGCGACGGCCGACACCGCG
4758887 GC
1 GC
4758889 GTCCGGGCAG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 35 0.97
22 1 0.03
ACGTcount: A:0.12, C:0.48, G:0.37, T:0.03
Consensus pattern (21 bp):
GCCGCGACGGCCGACACCGCG
Found at i:4758999 original size:78 final size:77
Alignment explanation
Indices: 4758917--4759200 Score: 408
Period size: 78 Copynumber: 3.6 Consensus size: 77
4758907 CGATGACGCG
* *
4758917 ACGGCGACCACCGACGCCGAACCGGCACCGCGCCGCCGCACCCGGAAGACCGCCACCACGACGGC
1 ACGGCAACCACCGACGCCG-ACCGGCACCGCGCCGCCGCACCCGGAAGACCACCACCACGACGGC
4758982 CGACACCGAGGCA
65 CGACACCGAGGCA
* *
4758995 ACGGCAACCACCGACGCCGA-CGCCACACGGCGCCGCCGCACCCGGAAGGCCACCACCACGACGG
1 ACGGCAACCACCGACGCCGACCGGCAC-C-GCGCCGCCGCACCCGGAAGACCACCACCACGACGG
4759059 CCGACACCGAGGCA
64 CCGACACCGAGGCA
* *
4759073 ACGGCAACCACCGACGCCGAACCGGCACCACGCCGCCGCACCCGGAAGGCCACCACCACGACGGC
1 ACGGCAACCACCGACGCCG-ACCGGCACCGCGCCGCCGCACCCGGAAGACCACCACCACGACGGC
* *
4759138 CGACACCGAAGCG
65 CGACACCGAGGCA
** * *
4759151 ACGGCAACCACCGACGCCGACGCCACACCGCGCCGCCGGACGCGGAAGAC
1 ACGGCAACCACCGACGCCGAC-CGGCACCGCGCCGCCGCACCCGGAAGAC
4759201 GGCTGACACC
Statistics
Matches: 187, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
76 5 0.03
77 4 0.02
78 171 0.91
79 2 0.01
80 5 0.03
ACGTcount: A:0.24, C:0.47, G:0.29, T:0.00
Consensus pattern (77 bp):
ACGGCAACCACCGACGCCGACCGGCACCGCGCCGCCGCACCCGGAAGACCACCACCACGACGGCC
GACACCGAGGCA
Found at i:4759083 original size:156 final size:156
Alignment explanation
Indices: 4758917--4759198 Score: 483
Period size: 156 Copynumber: 1.8 Consensus size: 156
4758907 CGATGACGCG
* * *
4758917 ACGGCGACCACCGACGCCGAACCGGCACCGCGCCGCCGCACCCGGAAGACCGCCACCACGACGGC
1 ACGGCAACCACCGACGCCGAACCGGCACCACGCCGCCGCACCCGGAAGACCACCACCACGACGGC
* *
4758982 CGACACCGAGGCAACGGCAACCACCGACGCCGACGCCACACGGCGCCGCCGCACCCGGAAGGCCA
66 CGACACCGAAGCAACGGCAACCACCGACGCCGACGCCACACCGCGCCGCCGCACCCGGAAGGCCA
4759047 CCACCACGACGGCCGACACCGAGGCA
131 CCACCACGACGGCCGACACCGAGGCA
*
4759073 ACGGCAACCACCGACGCCGAACCGGCACCACGCCGCCGCACCCGGAAGGCCACCACCACGACGGC
1 ACGGCAACCACCGACGCCGAACCGGCACCACGCCGCCGCACCCGGAAGACCACCACCACGACGGC
* * *
4759138 CGACACCGAAGCGACGGCAACCACCGACGCCGACGCCACACCGCGCCGCCGGACGCGGAAG
66 CGACACCGAAGCAACGGCAACCACCGACGCCGACGCCACACCGCGCCGCCGCACCCGGAAG
4759199 ACGGCTGACA
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
156 117 1.00
ACGTcount: A:0.24, C:0.47, G:0.29, T:0.00
Consensus pattern (156 bp):
ACGGCAACCACCGACGCCGAACCGGCACCACGCCGCCGCACCCGGAAGACCACCACCACGACGGC
CGACACCGAAGCAACGGCAACCACCGACGCCGACGCCACACCGCGCCGCCGCACCCGGAAGGCCA
CCACCACGACGGCCGACACCGAGGCA
Found at i:4785816 original size:15 final size:15
Alignment explanation
Indices: 4785796--4785842 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
4785786 AGCGGGCCCT
4785796 GGCGACGGTGTACGC
1 GGCGACGGTGTACGC
4785811 GGCGACGGTGTACGC
1 GGCGACGGTGTACGC
* *
4785826 GGTGACGGTGTGCGC
1 GGCGACGGTGTACGC
4785841 GG
1 GG
4785843 ATCAGGCGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.11, C:0.23, G:0.51, T:0.15
Consensus pattern (15 bp):
GGCGACGGTGTACGC
Found at i:4825519 original size:14 final size:16
Alignment explanation
Indices: 4825495--4825532 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
4825485 CGCCGATCAC
4825495 CGCGTCGCGGACC-A-G
1 CGCG-CGCGGACCGATG
4825510 CGCGCGCGGACCGATG
1 CGCGCGCGGACCGATG
4825526 CGCGCGC
1 CGCGCGC
4825533 CGAAACCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 5 0.24
16 8 0.38
ACGTcount: A:0.11, C:0.42, G:0.42, T:0.05
Consensus pattern (16 bp):
CGCGCGCGGACCGATG
Found at i:4851480 original size:21 final size:21
Alignment explanation
Indices: 4851456--4851495 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4851446 GTCGAGCGCG
4851456 CGCCGAGCACCACCAGCACCA
1 CGCCGAGCACCACCAGCACCA
**
4851477 CGCCGAGCACGGCCAGCAC
1 CGCCGAGCACCACCAGCAC
4851496 ACCACCGGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.50, G:0.25, T:0.00
Consensus pattern (21 bp):
CGCCGAGCACCACCAGCACCA
Found at i:4856048 original size:15 final size:17
Alignment explanation
Indices: 4856018--4856051 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
4856008 CGAGCAGAGA
4856018 CGGCGTGGCGGCGGGCG
1 CGGCGTGGCGGCGGGCG
4856035 CGGCG-GGC-GCGGGCG
1 CGGCGTGGCGGCGGGCG
4856050 CG
1 CG
4856052 CGGCGCAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 3 0.18
17 5 0.29
ACGTcount: A:0.00, C:0.32, G:0.65, T:0.03
Consensus pattern (17 bp):
CGGCGTGGCGGCGGGCG
Found at i:4867840 original size:15 final size:15
Alignment explanation
Indices: 4867820--4867866 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
4867810 TACGGCGCGC
4867820 CGGTCATCGGACCGG
1 CGGTCATCGGACCGG
* *
4867835 CGGTCATCGGAGCGC
1 CGGTCATCGGACCGG
*
4867850 CCGTCATCGGACCGG
1 CGGTCATCGGACCGG
4867865 CG
1 CG
4867867 ACCTGGTGCG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.13, C:0.36, G:0.38, T:0.13
Consensus pattern (15 bp):
CGGTCATCGGACCGG
Found at i:4869152 original size:13 final size:13
Alignment explanation
Indices: 4869134--4869158 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4869124 GGGCGCGACA
4869134 GGTCGACGGACCC
1 GGTCGACGGACCC
4869147 GGTCGACGGACC
1 GGTCGACGGACC
4869159 GGGCTGGACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GGTCGACGGACCC
Found at i:4878159 original size:15 final size:15
Alignment explanation
Indices: 4878136--4878166 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4878126 GCGCCGCTGC
4878136 CCGCACCGGCACCGG
1 CCGCACCGGCACCGG
*
4878151 CCGCCCCGGCACCGG
1 CCGCACCGGCACCGG
4878166 C
1 C
4878167 TCCGGCCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.58, G:0.32, T:0.00
Consensus pattern (15 bp):
CCGCACCGGCACCGG
Found at i:4880970 original size:15 final size:16
Alignment explanation
Indices: 4880934--4880970 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4880924 CGCATTCCGT
4880934 ATCCGCTGGCGGTGCG
1 ATCCGCTGGCGGTGCG
4880950 ATCCGCT-GCGG-GCG
1 ATCCGCTGGCGGTGCG
4880964 ATGCCGC
1 AT-CCGC
4880971 CGAGCACGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.08, C:0.35, G:0.41, T:0.16
Consensus pattern (16 bp):
ATCCGCTGGCGGTGCG
Found at i:4893696 original size:18 final size:18
Alignment explanation
Indices: 4893682--4893718 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4893672 TCGTCGGCGA
*
4893682 CACCGGTCTCTTCGGAAG
1 CACCGGGCTCTTCGGAAG
4893700 CACCGGGCTCTTCGGAAG
1 CACCGGGCTCTTCGGAAG
4893718 C
1 C
4893719 GCAGGGCTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (18 bp):
CACCGGGCTCTTCGGAAG
Found at i:4893725 original size:18 final size:18
Alignment explanation
Indices: 4893689--4893727 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4893679 CGACACCGGT
*
4893689 CTCTTCGGAAGCACCGGG
1 CTCTTCGGAAGCACAGGG
*
4893707 CTCTTCGGAAGCGCAGGG
1 CTCTTCGGAAGCACAGGG
4893725 CTC
1 CTC
4893728 GCCGGGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.18
Consensus pattern (18 bp):
CTCTTCGGAAGCACAGGG
Found at i:4894855 original size:16 final size:16
Alignment explanation
Indices: 4894834--4894868 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
4894824 CGGTGCCATA
4894834 GAGTTCAGCCGAGGCC
1 GAGTTCAGCCGAGGCC
4894850 GAGTTCAGCCGAGGCC
1 GAGTTCAGCCGAGGCC
4894866 GAG
1 GAG
4894869 ACGAAGGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.29, G:0.40, T:0.11
Consensus pattern (16 bp):
GAGTTCAGCCGAGGCC
Found at i:4898681 original size:15 final size:15
Alignment explanation
Indices: 4898663--4898694 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4898653 CGTGGACCTG
*
4898663 GCCGACGTGCGCGCC
1 GCCGACCTGCGCGCC
4898678 GCCGACCTGCGCGCC
1 GCCGACCTGCGCGCC
4898693 GC
1 GC
4898695 GGTCGGCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.50, G:0.38, T:0.06
Consensus pattern (15 bp):
GCCGACCTGCGCGCC
Found at i:4900522 original size:15 final size:15
Alignment explanation
Indices: 4900502--4900530 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4900492 CGGGGTGGAC
4900502 CTGCGCGACTACCGG
1 CTGCGCGACTACCGG
4900517 CTGCGCGACTACCG
1 CTGCGCGACTACCG
4900531 CGCCCGGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.41, G:0.31, T:0.14
Consensus pattern (15 bp):
CTGCGCGACTACCGG
Found at i:4901552 original size:21 final size:21
Alignment explanation
Indices: 4901536--4901600 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
4901526 GCGCAGTCCA
*
4901536 CCGCCAAGCCCCAGCAGCCCG
1 CCGCCAAGCCGCAGCAGCCCG
*
4901557 CCGCCAAGCCGCAGCAGGCCG
1 CCGCCAAGCCGCAGCAGCCCG
*
4901578 CCGCCAAGCCGCAGCAGGCCG
1 CCGCCAAGCCGCAGCAGCCCG
4901599 CC
1 CC
4901601 CCGAAGGCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.18, C:0.52, G:0.29, T:0.00
Consensus pattern (21 bp):
CCGCCAAGCCGCAGCAGCCCG
Found at i:4901624 original size:15 final size:15
Alignment explanation
Indices: 4901604--4901639 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
4901594 GGCCGCCCCG
4901604 AAGGCCACCGAGAGC
1 AAGGCCACCGAGAGC
4901619 AAGGCCACCGAGAGC
1 AAGGCCACCGAGAGC
4901634 AAGGCC
1 AAGGCC
4901640 GCCGCCCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (15 bp):
AAGGCCACCGAGAGC
Found at i:4935798 original size:14 final size:14
Alignment explanation
Indices: 4935781--4935812 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4935771 GTCTATCGGC
4935781 CGCGGCACTGATCA
1 CGCGGCACTGATCA
4935795 CGCGGCACTGATCA
1 CGCGGCACTGATCA
4935809 -GCGG
1 CGCGG
4935813 GCCCGCTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.19, C:0.34, G:0.34, T:0.12
Consensus pattern (14 bp):
CGCGGCACTGATCA
Found at i:4940184 original size:15 final size:15
Alignment explanation
Indices: 4940164--4940214 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
4940154 CCGCTTCCGG
*
4940164 CGCCGACCCTGCCAC
1 CGCCGACCTTGCCAC
4940179 CGCCGA-CTTCGCCAC
1 CGCCGACCTT-GCCAC
4940194 CGCCGACCTTGCCAC
1 CGCCGACCTTGCCAC
4940209 CGCCGA
1 CGCCGA
4940215 GGAACTCTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 2 0.06
15 28 0.85
16 3 0.09
ACGTcount: A:0.14, C:0.55, G:0.22, T:0.10
Consensus pattern (15 bp):
CGCCGACCTTGCCAC
Found at i:4945017 original size:39 final size:39
Alignment explanation
Indices: 4944913--4945010 Score: 160
Period size: 39 Copynumber: 2.5 Consensus size: 39
4944903 TGAAACCGAG
*
4944913 CCCGCAGAACACCGGCGGCGGTGCGGCCGCGGAGCCGGC
1 CCCGCAGAACACCGGCGGCGGTGCGGCCGCGGACCCGGC
* *
4944952 CCCACGGAACACCGGCGGCGGTGCGGCCGCGGACCCGGC
1 CCCGCAGAACACCGGCGGCGGTGCGGCCGCGGACCCGGC
*
4944991 CCCGCCGAACACCGGCGGCG
1 CCCGCAGAACACCGGCGGCG
4945011 CCGCGGCGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.13, C:0.44, G:0.41, T:0.02
Consensus pattern (39 bp):
CCCGCAGAACACCGGCGGCGGTGCGGCCGCGGACCCGGC
Found at i:4945742 original size:12 final size:12
Alignment explanation
Indices: 4945725--4945750 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4945715 GCGTGCTCGA
4945725 CGATGGCGAACC
1 CGATGGCGAACC
4945737 CGATGGCGAACC
1 CGATGGCGAACC
4945749 CG
1 CG
4945751 GCGACGGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.35, T:0.08
Consensus pattern (12 bp):
CGATGGCGAACC
Found at i:4946475 original size:77 final size:77
Alignment explanation
Indices: 4946369--4946794 Score: 816
Period size: 77 Copynumber: 5.5 Consensus size: 77
4946359 CGCTGACCCG
* * **
4946369 CACGCTCCGCTCCCCCTCCGGGCGCTGACCCGCTCAGGCTGTGTCCAATTCCGCCCGAGCGGGAC
1 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
4946434 GCCCTACGCGGC
66 GCCCTACGCGGC
4946446 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
1 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
4946511 GCCCTACGCGGC
66 GCCCTACGCGGC
4946523 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
1 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
4946588 GCCCTACGCGGC
66 GCCCTACGCGGC
4946600 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
1 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
4946665 GCCCTACGCGGC
66 GCCCTACGCGGC
4946677 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
1 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
4946742 GCCCTACGCGGC
66 GCCCTACGCGGC
4946754 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGG
1 CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGG
4946795 CGGCGCGGGT
Statistics
Matches: 345, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 345 1.00
ACGTcount: A:0.12, C:0.47, G:0.29, T:0.12
Consensus pattern (77 bp):
CACGCTCCGCTCCCACTCCGGGCGCTGACCCGCTCAGGCGGTACCCAATTCCGCCCGAGCGGGAC
GCCCTACGCGGC
Found at i:4948431 original size:51 final size:51
Alignment explanation
Indices: 4948372--4948474 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
4948362 CGCGTCTCCT
4948372 CGGCGGCGTCGACCTCGCTGCCCGGGCCCGCCTTCACCCCGCCGATGTCCA
1 CGGCGGCGTCGACCTCGCTGCCCGGGCCCGCCTTCACCCCGCCGATGTCCA
4948423 CGGCGGCGTCGACCTCGCTGCCCGGGCCCGCCTTCACCCCGCCGATGTCCA
1 CGGCGGCGTCGACCTCGCTGCCCGGGCCCGCCTTCACCCCGCCGATGTCCA
4948474 C
1 C
4948475 CAGGTCGGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.08, C:0.50, G:0.29, T:0.14
Consensus pattern (51 bp):
CGGCGGCGTCGACCTCGCTGCCCGGGCCCGCCTTCACCCCGCCGATGTCCA
Found at i:4950373 original size:21 final size:20
Alignment explanation
Indices: 4950349--4950399 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
4950339 GCCCGGTGAG
* *
4950349 CATGCCGAGGGCGTTGCGCGC
1 CATGCCG-GGGCGTCGAGCGC
*
4950370 CATGACCGGGGCGTCGAGGGC
1 CATG-CCGGGGCGTCGAGCGC
4950391 CATGCCGGG
1 CATGCCGGG
4950400 CAGGGCACGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 18 0.69
22 3 0.12
ACGTcount: A:0.12, C:0.31, G:0.45, T:0.12
Consensus pattern (20 bp):
CATGCCGGGGCGTCGAGCGC
Found at i:4968603 original size:16 final size:16
Alignment explanation
Indices: 4968582--4968612 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4968572 ACACGTCATG
4968582 GAGTCTAGGCGGCGGC
1 GAGTCTAGGCGGCGGC
*
4968598 GAGTCTAGGTGGCGG
1 GAGTCTAGGCGGCGG
4968613 GGCCGTCCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.19, G:0.52, T:0.16
Consensus pattern (16 bp):
GAGTCTAGGCGGCGGC
Found at i:4976517 original size:9 final size:9
Alignment explanation
Indices: 4976503--4976536 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
4976493 GCTCGGTGCT
4976503 GTCGATCGG
1 GTCGATCGG
4976512 GTCGATCGG
1 GTCGATCGG
* *
4976521 CTCGTTCGG
1 GTCGATCGG
4976530 GTCGATC
1 GTCGATC
4976537 ATCTCCACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.09, C:0.26, G:0.38, T:0.26
Consensus pattern (9 bp):
GTCGATCGG
Found at i:5008964 original size:15 final size:15
Alignment explanation
Indices: 5008924--5008979 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
5008914 CCGAAGTTGT
* *
5008924 CGAGGCCGAAGCGGC
1 CGAGCCCGAGGCGGC
*
5008939 CGAGCCGGAGGCGGC
1 CGAGCCCGAGGCGGC
* *
5008954 CGAGCCCGAGGTGGA
1 CGAGCCCGAGGCGGC
*
5008969 AGAGCCCGAGG
1 CGAGCCCGAGG
5008980 TCGCCAAGCG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.20, C:0.30, G:0.48, T:0.02
Consensus pattern (15 bp):
CGAGCCCGAGGCGGC
Found at i:5010743 original size:16 final size:16
Alignment explanation
Indices: 5010722--5010752 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5010712 CGCCGGATCC
5010722 GAATCCGACGAGTCCT
1 GAATCCGACGAGTCCT
5010738 GAATCCGACGAGTCC
1 GAATCCGACGAGTCC
5010753 GAGCCGAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.16
Consensus pattern (16 bp):
GAATCCGACGAGTCCT
Found at i:5021605 original size:18 final size:18
Alignment explanation
Indices: 5021582--5021616 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5021572 GTGGGCGGGA
*
5021582 CACCGGAATTCGCGGGGT
1 CACCGGAACTCGCGGGGT
5021600 CACCGGAACTCGCGGGG
1 CACCGGAACTCGCGGGG
5021617 ACGGCGGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.31, G:0.40, T:0.11
Consensus pattern (18 bp):
CACCGGAACTCGCGGGGT
Found at i:5021697 original size:18 final size:18
Alignment explanation
Indices: 5021674--5021732 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
5021664 GGCGGGTACC
5021674 GCGGGCATCGCAGGCACA
1 GCGGGCATCGCAGGCACA
* *
5021692 GCGGGCA-GGCCGGGCACA
1 GCGGGCATCG-CAGGCACA
*
5021710 GCTGGCATCGCAGGCACA
1 GCGGGCATCGCAGGCACA
5021728 GCGGG
1 GCGGG
5021733 TGGGCCGGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.19, C:0.32, G:0.44, T:0.05
Consensus pattern (18 bp):
GCGGGCATCGCAGGCACA
Found at i:5021718 original size:36 final size:36
Alignment explanation
Indices: 5021677--5021819 Score: 141
Period size: 36 Copynumber: 4.0 Consensus size: 36
5021667 GGGTACCGCG
5021677 GGCATCGCAGGCACAGCGGGCAGGCCGGGCACAGCT
1 GGCATCGCAGGCACAGCGGGCAGGCCGGGCACAGCT
** * *
5021713 GGCATCGCAGGCACAGCGGGTGGGCCGGCCACGGCT
1 GGCATCGCAGGCACAGCGGGCAGGCCGGGCACAGCT
* * **
5021749 GGCATCGCAGACACAGCGGGTC-GGGCGGGCACCA-AA
1 GGCATCGCAGGCACAGCGGG-CAGGCCGGGCA-CAGCT
*
5021785 GGCACATTG--GGCACAGCGGGCAGGCCGGGCACAGC
1 GG--CATCGCAGGCACAGCGGGCAGGCCGGGCACAGC
5021820 AGGGACAGTG
Statistics
Matches: 86, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
35 3 0.03
36 78 0.91
37 1 0.01
38 4 0.05
ACGTcount: A:0.20, C:0.32, G:0.42, T:0.06
Consensus pattern (36 bp):
GGCATCGCAGGCACAGCGGGCAGGCCGGGCACAGCT
Found at i:5022166 original size:30 final size:30
Alignment explanation
Indices: 5022132--5022238 Score: 115
Period size: 30 Copynumber: 3.6 Consensus size: 30
5022122 ACGCGACCGG
* *
5022132 GTCCGAGACCACGCCCGGCCGCGCAACCCC
1 GTCCGACACCACACCCGGCCGCGCAACCCC
* * * *
5022162 GTCCGACACCACACCCGACTGCACAACCTC
1 GTCCGACACCACACCCGGCCGCGCAACCCC
* **
5022192 GTCCGACACCACACCCAGCCGCGCAACCTG
1 GTCCGACACCACACCCGGCCGCGCAACCCC
* *
5022222 GCCCGACACCGCACCCG
1 GTCCGACACCACACCCG
5022239 ATTGCGCATC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.21, C:0.52, G:0.21, T:0.06
Consensus pattern (30 bp):
GTCCGACACCACACCCGGCCGCGCAACCCC
Found at i:5022246 original size:30 final size:30
Alignment explanation
Indices: 5022164--5022261 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 30
5022154 GCAACCCCGT
* * *
5022164 CCGACACCACACCCGACTGCACAACCTCGT
1 CCGACACCACACCCGACTGCGCAACCTGGC
*
5022194 CCGACACCACACCC-AGCCGCGCAACCTGGC
1 CCGACACCACACCCGA-CTGCGCAACCTGGC
* * * *
5022224 CCGACACCGCACCCGATTGCGCATCCAGGC
1 CCGACACCACACCCGACTGCGCAACCTGGC
*
5022254 CCCACACC
1 CCGACACC
5022262 CGTCCCGGCG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 1 0.02
30 54 0.96
31 1 0.02
ACGTcount: A:0.23, C:0.52, G:0.17, T:0.07
Consensus pattern (30 bp):
CCGACACCACACCCGACTGCGCAACCTGGC
Found at i:5023577 original size:24 final size:24
Alignment explanation
Indices: 5023549--5023594 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5023539 GACGCTGAGG
*
5023549 GGTCGCGCCGGGAGTGCTCGGCGC
1 GGTCGCGCCAGGAGTGCTCGGCGC
* *
5023573 GGTCGGGTCAGGAGTGCTCGGC
1 GGTCGCGCCAGGAGTGCTCGGC
5023595 CAGGTACTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.07, C:0.28, G:0.50, T:0.15
Consensus pattern (24 bp):
GGTCGCGCCAGGAGTGCTCGGCGC
Found at i:5025973 original size:24 final size:24
Alignment explanation
Indices: 5025923--5025976 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
5025913 CGCGGACGAG
** * *
5025923 ACGACCACCGGGGCCGAGGGTGGC
1 ACGACCACCGGCACCGAGGGCGCC
*
5025947 ACGACCACCGGCACCGCGGGCGCC
1 ACGACCACCGGCACCGAGGGCGCC
5025971 ACGACC
1 ACGACC
5025977 TCCCCGGGCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.19, C:0.43, G:0.37, T:0.02
Consensus pattern (24 bp):
ACGACCACCGGCACCGAGGGCGCC
Found at i:5045116 original size:27 final size:27
Alignment explanation
Indices: 5045072--5045124 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
5045062 CGGATACTCA
* *
5045072 CCGCCCTGGCCGTAGCCCTGCTGGTAG
1 CCGCCCTGGCCGCAGCCCTGCGGGTAG
* *
5045099 CCGCCCTGGGCGCCGCCCTGCGGGTA
1 CCGCCCTGGCCGCAGCCCTGCGGGTA
5045125 CTCTGTGCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.06, C:0.43, G:0.36, T:0.15
Consensus pattern (27 bp):
CCGCCCTGGCCGCAGCCCTGCGGGTAG
Found at i:5045180 original size:21 final size:20
Alignment explanation
Indices: 5045134--5045200 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 20
5045124 ACTCTGTGCC
*
5045134 CTGCGGGTAGGCGCCACCCTG
1 CTGCGGGTAGG-GCCGCCCTG
5045155 --G-GGGTAGGTGCCGCCCTG
1 CTGCGGGTAGG-GCCGCCCTG
5045173 CTGCGGGTA--GCCGCCCTG
1 CTGCGGGTAGGGCCGCCCTG
*
5045191 CTGCTGGTAG
1 CTGCGGGTAG
5045201 CCGCCGGTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
18 32 0.82
19 1 0.03
20 1 0.03
21 5 0.13
ACGTcount: A:0.07, C:0.33, G:0.42, T:0.18
Consensus pattern (20 bp):
CTGCGGGTAGGGCCGCCCTG
Found at i:5045217 original size:18 final size:18
Alignment explanation
Indices: 5045164--5045205 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
5045154 GGGGGTAGGT
5045164 GCCGCCCTGCTGCGGGTA
1 GCCGCCCTGCTGCGGGTA
*
5045182 GCCGCCCTGCTGCTGGTA
1 GCCGCCCTGCTGCGGGTA
5045200 GCCGCC
1 GCCGCC
5045206 GGTCTGCGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.05, C:0.43, G:0.36, T:0.17
Consensus pattern (18 bp):
GCCGCCCTGCTGCGGGTA
Found at i:5056124 original size:13 final size:14
Alignment explanation
Indices: 5056093--5056126 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
5056083 TGACCCACCA
5056093 CCGCGCGTTCCGAC
1 CCGCGCGTTCCGAC
5056107 CCGCGCGTTCCG-C
1 CCGCGCGTTCCGAC
5056120 CCGCGCG
1 CCGCGCG
5056127 GGTGGTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.03, C:0.53, G:0.32, T:0.12
Consensus pattern (14 bp):
CCGCGCGTTCCGAC
Found at i:5057749 original size:17 final size:18
Alignment explanation
Indices: 5057724--5057758 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5057714 CTGGCCGCGT
5057724 ACGCCGTGGGC-GCGCTG
1 ACGCCGTGGGCGGCGCTG
*
5057741 ACGCTGTGGGCGGCGCTG
1 ACGCCGTGGGCGGCGCTG
5057759 CTCACCGCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.06, C:0.31, G:0.49, T:0.14
Consensus pattern (18 bp):
ACGCCGTGGGCGGCGCTG
Found at i:5067477 original size:77 final size:77
Alignment explanation
Indices: 5067383--5067665 Score: 525
Period size: 77 Copynumber: 3.7 Consensus size: 77
5067373 GCCGGTCCCC
5067383 GCCTGAGC-GGTCAGCGGCCGGAGGCGGTAGCGC-GCGTCACCACGCAGGCCGCCCCGCTCAGGC
1 GCCTGAGCGGGTCAGCGGCCGGAGGCGGTAGCGCAGCGTCACCACGCAGGCCGCCCCGCTCAGGC
5067446 GAAATCCAACACA
66 -AAATCCAACACA
5067459 GCCTGAGCGGGTCAGCGGCCGGAGGCGGTAGCGCAGCGTCACCACGCAGGCCGCCCCGCTCAGGC
1 GCCTGAGCGGGTCAGCGGCCGGAGGCGGTAGCGCAGCGTCACCACGCAGGCCGCCCCGCTCAGGC
5067524 AAATCCAACACA
66 AAATCCAACACA
5067536 GCCTGAGCGGGTCAGCGGCCGGAGGCGGTAGCGCAGCGTCACCACGCAGGCCGCCCCGCTCAGGC
1 GCCTGAGCGGGTCAGCGGCCGGAGGCGGTAGCGCAGCGTCACCACGCAGGCCGCCCCGCTCAGGC
5067601 AAATCCAACACA
66 AAATCCAACACA
* *
5067613 GCCTGAGCGGGTCAGCGGCCGGAGGCGGTAGCGCAGCGTTACCCCGCAGGCCG
1 GCCTGAGCGGGTCAGCGGCCGGAGGCGGTAGCGCAGCGTCACCACGCAGGCCG
5067666 GTCGGTTCAC
Statistics
Matches: 203, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
76 8 0.04
77 165 0.81
78 30 0.15
ACGTcount: A:0.19, C:0.37, G:0.36, T:0.08
Consensus pattern (77 bp):
GCCTGAGCGGGTCAGCGGCCGGAGGCGGTAGCGCAGCGTCACCACGCAGGCCGCCCCGCTCAGGC
AAATCCAACACA
Found at i:5070823 original size:20 final size:20
Alignment explanation
Indices: 5070795--5070834 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
5070785 GGATCTCCTC
*
5070795 GCCTCACCCTTCGAACACGA
1 GCCTCACCCGTCGAACACGA
*
5070815 GCCTTACCCGTCGAACACGA
1 GCCTCACCCGTCGAACACGA
5070835 AGCGCGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.42, G:0.17, T:0.15
Consensus pattern (20 bp):
GCCTCACCCGTCGAACACGA
Found at i:5075322 original size:27 final size:27
Alignment explanation
Indices: 5075292--5075397 Score: 158
Period size: 27 Copynumber: 3.9 Consensus size: 27
5075282 CGAGGGCCGC
*
5075292 GGCACGGAGGTGCCACTGTGGGATTAG
1 GGCACGGAGGTGCCACTGTGGGATCAG
5075319 GGCACGGAGGTGCCACTGTGGGATCAG
1 GGCACGGAGGTGCCACTGTGGGATCAG
* * *
5075346 GGCACAGAGGTGCCACTGGGGGATCAC
1 GGCACGGAGGTGCCACTGTGGGATCAG
* *
5075373 GACACGGAGGTGCCGCTGTGGGATC
1 GGCACGGAGGTGCCACTGTGGGATC
5075398 GGAGGCGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.19, C:0.23, G:0.43, T:0.15
Consensus pattern (27 bp):
GGCACGGAGGTGCCACTGTGGGATCAG
Found at i:5084004 original size:15 final size:14
Alignment explanation
Indices: 5083980--5084010 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
5083970 CGATCATGGA
5083980 CGCTTACGAGTACG
1 CGCTTACGAGTACG
5083994 CGCTGTACGAGTACG
1 CGCT-TACGAGTACG
5084009 CG
1 CG
5084011 GCGCATCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.19
Consensus pattern (14 bp):
CGCTTACGAGTACG
Found at i:5091331 original size:18 final size:18
Alignment explanation
Indices: 5091304--5091342 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
5091294 TGAAACCAGC
*
5091304 CATCCTGAAGTAGACCGA
1 CATCCCGAAGTAGACCGA
5091322 CATCCCGAAGTAGACCGA
1 CATCCCGAAGTAGACCGA
5091340 CAT
1 CAT
5091343 ACCGCCCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (18 bp):
CATCCCGAAGTAGACCGA
Found at i:5101976 original size:18 final size:18
Alignment explanation
Indices: 5101953--5101991 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
5101943 GAGTGTGACC
5101953 GCCATGCAAGCCTCCGCT
1 GCCATGCAAGCCTCCGCT
5101971 GCCATGCAAGCCTCCGCT
1 GCCATGCAAGCCTCCGCT
5101989 GCC
1 GCC
5101992 CGAGGAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.46, G:0.23, T:0.15
Consensus pattern (18 bp):
GCCATGCAAGCCTCCGCT
Found at i:5106775 original size:18 final size:18
Alignment explanation
Indices: 5106752--5106788 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5106742 TGCGGCTCAG
5106752 GACAACTCCCGACTCGGC
1 GACAACTCCCGACTCGGC
5106770 GACAACTCCCGACTCGGC
1 GACAACTCCCGACTCGGC
5106788 G
1 G
5106789 CGGTCCCGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.43, G:0.24, T:0.11
Consensus pattern (18 bp):
GACAACTCCCGACTCGGC
Found at i:5131624 original size:15 final size:15
Alignment explanation
Indices: 5131604--5131633 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5131594 GTGAATTGTT
*
5131604 CGGCGCGGTGGCGGG
1 CGGCGCGGCGGCGGG
5131619 CGGCGCGGCGGCGGG
1 CGGCGCGGCGGCGGG
5131634 TGGCCGGGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.30, G:0.67, T:0.03
Consensus pattern (15 bp):
CGGCGCGGCGGCGGG
Found at i:5141864 original size:23 final size:23
Alignment explanation
Indices: 5141837--5141889 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
5141827 CGCGCGGAGA
5141837 CACCGCGCTGATCCGGCCGACGT
1 CACCGCGCTGATCCGGCCGACGT
*
5141860 CACCGCGCTGTTCCGGCCGACGT
1 CACCGCGCTGATCCGGCCGACGT
5141883 CACCGCG
1 CACCGCG
5141890 TCACGAGGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.11, C:0.45, G:0.30, T:0.13
Consensus pattern (23 bp):
CACCGCGCTGATCCGGCCGACGT
Found at i:5144455 original size:18 final size:18
Alignment explanation
Indices: 5144428--5144474 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
5144418 GGCCTGCTGG
5144428 CACCCCCGCCCCTCACAC
1 CACCCCCGCCCCTCACAC
* *
5144446 CACCCGCGCCCCTCGCAC
1 CACCCCCGCCCCTCACAC
5144464 CACCCCCGCCC
1 CACCCCCGCCC
5144475 GGCGTGCCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.72, G:0.11, T:0.04
Consensus pattern (18 bp):
CACCCCCGCCCCTCACAC
Found at i:5144539 original size:15 final size:15
Alignment explanation
Indices: 5144519--5144548 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5144509 CGGCGGCCGA
5144519 GCCGATGCCCGCGCT
1 GCCGATGCCCGCGCT
5144534 GCCGATGCCCGCGCT
1 GCCGATGCCCGCGCT
5144549 CGGGGCCGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.47, G:0.33, T:0.13
Consensus pattern (15 bp):
GCCGATGCCCGCGCT
Found at i:5167634 original size:21 final size:21
Alignment explanation
Indices: 5167589--5167652 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 21
5167579 GCCACTGGCC
*
5167589 GAGTTGCACGCCGTACAAGC-CG
1 GAGTTGCA-GCCGTAC-AGCGGG
5167611 GAGTTGCAGCCGTACAGCGGG
1 GAGTTGCAGCCGTACAGCGGG
5167632 GA---GCAGCCGTACAGCGGG
1 GAGTTGCAGCCGTACAGCGGG
5167650 GAG
1 GAG
5167653 AAGAACCAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 18 0.46
20 3 0.08
21 10 0.26
22 8 0.21
ACGTcount: A:0.22, C:0.27, G:0.41, T:0.11
Consensus pattern (21 bp):
GAGTTGCAGCCGTACAGCGGG
Found at i:5167639 original size:18 final size:18
Alignment explanation
Indices: 5167616--5167652 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5167606 AGCCGGAGTT
5167616 GCAGCCGTACAGCGGGGA
1 GCAGCCGTACAGCGGGGA
5167634 GCAGCCGTACAGCGGGGA
1 GCAGCCGTACAGCGGGGA
5167652 G
1 G
5167653 AAGAACCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.27, G:0.46, T:0.05
Consensus pattern (18 bp):
GCAGCCGTACAGCGGGGA
Found at i:5168692 original size:15 final size:15
Alignment explanation
Indices: 5168672--5168712 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
5168662 TGCGTGGTCG
5168672 TCGGCGGTGGCGTCC
1 TCGGCGGTGGCGTCC
*
5168687 TCGGCGGTGTCGTCC
1 TCGGCGGTGGCGTCC
*
5168702 TCGTCGGTGGC
1 TCGGCGGTGGC
5168713 CGCCCGACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.00, C:0.32, G:0.44, T:0.24
Consensus pattern (15 bp):
TCGGCGGTGGCGTCC
Found at i:5180426 original size:19 final size:20
Alignment explanation
Indices: 5180391--5180428 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5180381 GCGGTTCGAC
5180391 CGGCCGGCCGACCGGGGCGA
1 CGGCCGGCCGACCGGGGCGA
*
5180411 CGGCGGGCCG-CCGGGGCG
1 CGGCCGGCCGACCGGGGCG
5180429 CGCTTCGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.05, C:0.39, G:0.55, T:0.00
Consensus pattern (20 bp):
CGGCCGGCCGACCGGGGCGA
Found at i:5187484 original size:17 final size:17
Alignment explanation
Indices: 5187462--5187546 Score: 134
Period size: 17 Copynumber: 5.0 Consensus size: 17
5187452 CACTCCCCCT
*
5187462 CATTCGTCGCCGGCTGC
1 CATTCGTCGTCGGCTGC
5187479 CATTCGTCGTCGGCTGC
1 CATTCGTCGTCGGCTGC
*
5187496 CATTCGTCGCCGGCTGC
1 CATTCGTCGTCGGCTGC
*
5187513 CATTCGCCGTCGGCTGC
1 CATTCGTCGTCGGCTGC
*
5187530 CATTCGCCGTCGGCTGC
1 CATTCGTCGTCGGCTGC
5187547 TCAGAGCCGC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 64 1.00
ACGTcount: A:0.06, C:0.40, G:0.29, T:0.25
Consensus pattern (17 bp):
CATTCGTCGTCGGCTGC
Found at i:5195554 original size:6 final size:6
Alignment explanation
Indices: 5195543--5195577 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
5195533 CGGCCGTTCG
5195543 TCGGCA TCGGCA TCGGCA TCGGCA TCGGCA TCGGC
1 TCGGCA TCGGCA TCGGCA TCGGCA TCGGCA TCGGC
5195578 GGAGCGCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.17
Consensus pattern (6 bp):
TCGGCA
Found at i:5195998 original size:42 final size:41
Alignment explanation
Indices: 5195927--5196057 Score: 164
Period size: 42 Copynumber: 3.3 Consensus size: 41
5195917 CGACACCAGG
* * *
5195927 ACCGCGCCCACCACCACCCCGGCGGCGCGACCCGGCGACGGC
1 ACCGCGACCACCACCACCCC-ACGACGCGACCCGGCGACGGC
5195969 ACCGCGACCACCACCACCCGCACGACGCGACCCGGCGACGGC
1 ACCGCGACCACCACCACCC-CACGACGCGACCCGGCGACGGC
* *
5196011 ACCGCG---ACCA-C-GCCCACGACGCGACCCGGTGACGGC
1 ACCGCGACCACCACCACCCCACGACGCGACCCGGCGACGGC
5196047 ACCGCGACCAC
1 ACCGCGACCAC
5196058 GCCCACGACA
Statistics
Matches: 80, Mismatches: 5, Indels: 11
0.83 0.05 0.11
Matches are distributed among these distances:
36 27 0.34
37 2 0.03
38 1 0.01
39 6 0.07
42 43 0.54
43 1 0.01
ACGTcount: A:0.19, C:0.52, G:0.28, T:0.01
Consensus pattern (41 bp):
ACCGCGACCACCACCACCCCACGACGCGACCCGGCGACGGC
Found at i:5196029 original size:36 final size:36
Alignment explanation
Indices: 5195952--5196088 Score: 159
Period size: 36 Copynumber: 3.6 Consensus size: 36
5195942 ACCCCGGCGG
*
5195952 CGCGACCCGGCGACGGCACCGCGACCACCACCACCCGCACGA
1 CGCGACCCGGCGACGGCACCGCG---ACCA-C-GCC-CACGA
5195994 CGCGACCCGGCGACGGCACCGCGACCACGCCCACGA
1 CGCGACCCGGCGACGGCACCGCGACCACGCCCACGA
*
5196030 CGCGACCCGGTGACGGCACCGCGACCACGCCCACGA
1 CGCGACCCGGCGACGGCACCGCGACCACGCCCACGA
* * *
5196066 CACGGA-CCGACGACGGCCCCGCG
1 CGC-GACCCGGCGACGGCACCGCG
5196089 GTCGAACCGG
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
36 56 0.64
37 4 0.05
38 1 0.01
39 4 0.05
42 23 0.26
ACGTcount: A:0.20, C:0.50, G:0.30, T:0.01
Consensus pattern (36 bp):
CGCGACCCGGCGACGGCACCGCGACCACGCCCACGA
Found at i:5196926 original size:15 final size:15
Alignment explanation
Indices: 5196908--5196936 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5196898 ACGGAACCAG
5196908 ACCGCACCCGGCCAA
1 ACCGCACCCGGCCAA
5196923 ACCGCACCCGGCCA
1 ACCGCACCCGGCCA
5196937 GATCGCGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.55, G:0.21, T:0.00
Consensus pattern (15 bp):
ACCGCACCCGGCCAA
Found at i:5197004 original size:15 final size:15
Alignment explanation
Indices: 5196984--5197028 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
5196974 CCCAACCAAC
5196984 CAGCACCCGGCCAGG
1 CAGCACCCGGCCAGG
5196999 CAGCACCCGGCCAGG
1 CAGCACCCGGCCAGG
5197014 CAGCACCCGGCCAGG
1 CAGCACCCGGCCAGG
5197029 TTGAAACTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.20, C:0.47, G:0.33, T:0.00
Consensus pattern (15 bp):
CAGCACCCGGCCAGG
Found at i:5197445 original size:30 final size:30
Alignment explanation
Indices: 5197409--5197476 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
5197399 ATCGACCCCT
* * *
5197409 ACCAAATCGGCCCCTACCAAACCGGCCGCC
1 ACCAAATCAGCCCCCACAAAACCGGCCGCC
* *
5197439 ACCAAATCAGCCCCCACAAAATCGGCCGCG
1 ACCAAATCAGCCCCCACAAAACCGGCCGCC
*
5197469 GCCAAATC
1 ACCAAATC
5197477 CACCACCCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.46, G:0.16, T:0.07
Consensus pattern (30 bp):
ACCAAATCAGCCCCCACAAAACCGGCCGCC
Found at i:5197455 original size:15 final size:15
Alignment explanation
Indices: 5197397--5197465 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
5197387 GTCCACCGCG
* *
5197397 AAATCGACCCCTACC
1 AAATCGGCCCCCACC
*
5197412 AAATCGGCCCCTACC
1 AAATCGGCCCCCACC
* *
5197427 AAACCGGCCGCCACC
1 AAATCGGCCCCCACC
* *
5197442 AAATCAGCCCCCACA
1 AAATCGGCCCCCACC
5197457 AAATCGGCC
1 AAATCGGCC
5197466 GCGGCCAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.32, C:0.46, G:0.13, T:0.09
Consensus pattern (15 bp):
AAATCGGCCCCCACC
Found at i:5202422 original size:18 final size:17
Alignment explanation
Indices: 5202401--5202456 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
5202391 CGCACGGGCA
5202401 TCGTCGCCGTAGTGCTCG
1 TCGTC-CCGTAGTGCTCG
5202419 TCGT--CGTAGTGCTCG
1 TCGTCCCGTAGTGCTCG
*
5202434 TCGTCCGCGTAGTACTCG
1 TCGTCC-CGTAGTGCTCG
*
5202452 CCGTC
1 TCGTC
5202457 GTCGTGGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 15 0.45
18 18 0.55
ACGTcount: A:0.07, C:0.34, G:0.30, T:0.29
Consensus pattern (17 bp):
TCGTCCCGTAGTGCTCG
Found at i:5202469 original size:18 final size:18
Alignment explanation
Indices: 5202417--5202461 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
5202407 CCGTAGTGCT
* *
5202417 CGTCGTCGTAGTGCTCGT
1 CGTCGTCGTAGTACTCGC
5202435 CGTCCG-CGTAGTACTCGC
1 CGT-CGTCGTAGTACTCGC
5202453 CGTCGTCGT
1 CGTCGTCGT
5202462 GGTCCTCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.07, C:0.33, G:0.31, T:0.29
Consensus pattern (18 bp):
CGTCGTCGTAGTACTCGC
Found at i:5202525 original size:30 final size:30
Alignment explanation
Indices: 5202408--5202533 Score: 100
Period size: 30 Copynumber: 4.2 Consensus size: 30
5202398 GCATCGTCGC
* * *
5202408 CGTAGTGCTCGTCGTCGTAGTGCTCGTCGTCCG
1 CGTAGTGATCGTCGTCGTA--GC-GGTCGTCCT
* *
5202441 CGTAGT-ACTCGCCGTCGT--C-GTGGTCCT
1 CGTAGTGA-TCGTCGTCGTAGCGGTCGTCCT
* * *
5202468 CGTAGTGATCGTCCTCGTAGTGATCGTCCT
1 CGTAGTGATCGTCGTCGTAGCGGTCGTCCT
5202498 CGTAGTGATCGTCGTCGTAGCGGTCGTCGC-
1 CGTAGTGATCGTCGTCGTAGCGGTCGTC-CT
5202528 CGTAGT
1 CGTAGT
5202534 AGTCGTGCTC
Statistics
Matches: 75, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
27 20 0.27
28 1 0.01
29 1 0.01
30 37 0.49
31 1 0.01
33 15 0.20
ACGTcount: A:0.10, C:0.29, G:0.32, T:0.30
Consensus pattern (30 bp):
CGTAGTGATCGTCGTCGTAGCGGTCGTCCT
Found at i:5202539 original size:15 final size:15
Alignment explanation
Indices: 5202400--5202533 Score: 84
Period size: 15 Copynumber: 8.9 Consensus size: 15
5202390 CCGCACGGGC
5202400 ATCGTCGCCGTAGTG
1 ATCGTCGCCGTAGTG
* *
5202415 CTCGTCGTCGTAGTG
1 ATCGTCGCCGTAGTG
*
5202430 CTCGTCGTCCGCGTAGT-
1 ATCGTCG--C-CGTAGTG
*
5202447 A-C-TCGCCGTCGTCG
1 ATCGTCGCCGTAGT-G
*
5202461 -TGGTC-CTCGTAGTG
1 ATCGTCGC-CGTAGTG
5202475 ATCGTC-CTCGTAGTG
1 ATCGTCGC-CGTAGTG
5202490 ATCGTC-CTCGTAGTG
1 ATCGTCGC-CGTAGTG
* *
5202505 ATCGTCGTCGTAGCG
1 ATCGTCGCCGTAGTG
*
5202520 GTCGTCGCCGTAGT
1 ATCGTCGCCGTAGT
5202534 AGTCGTGCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
12 5 0.05
13 1 0.01
14 2 0.02
15 81 0.84
16 1 0.01
18 6 0.06
ACGTcount: A:0.10, C:0.29, G:0.31, T:0.30
Consensus pattern (15 bp):
ATCGTCGCCGTAGTG
Found at i:5202547 original size:21 final size:21
Alignment explanation
Indices: 5202521--5202560 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5202511 GTCGTAGCGG
*
5202521 TCGTCGCCGTAGTAGTCGTGC
1 TCGTCGCCGTAATAGTCGTGC
*
5202542 TCGTCGTCGTAATAGTCGT
1 TCGTCGCCGTAATAGTCGT
5202561 CGTGCTCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.25, G:0.30, T:0.33
Consensus pattern (21 bp):
TCGTCGCCGTAATAGTCGTGC
Found at i:5204219 original size:18 final size:18
Alignment explanation
Indices: 5204196--5204230 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5204186 GTAGGATTGG
5204196 CCGGGCTGCTGACCGTAC
1 CCGGGCTGCTGACCGTAC
*
5204214 CCGGGCTGCTGGCCGTA
1 CCGGGCTGCTGACCGTA
5204231 GGGCGACTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.37, G:0.37, T:0.17
Consensus pattern (18 bp):
CCGGGCTGCTGACCGTAC
Found at i:5204234 original size:15 final size:15
Alignment explanation
Indices: 5204216--5204270 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
5204206 GACCGTACCC
5204216 GGGCTGCTGGCCGTA
1 GGGCTGCTGGCCGTA
**
5204231 GGGC-GACTGGCCCGGC
1 GGGCTG-CTGG-CCGTA
*
5204247 TGGCT-CTGGCCGTA
1 GGGCTGCTGGCCGTA
5204261 GGGCTGCTGG
1 GGGCTGCTGG
5204271 GGCTGCTGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 8 0.27
15 16 0.53
16 6 0.20
ACGTcount: A:0.05, C:0.29, G:0.47, T:0.18
Consensus pattern (15 bp):
GGGCTGCTGGCCGTA
Found at i:5204317 original size:18 final size:18
Alignment explanation
Indices: 5204294--5204331 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5204284 GGGGGCCGGT
*
5204294 GCCGTAGCCCGGCTGCTG
1 GCCGTAGCACGGCTGCTG
*
5204312 GCCGTAGGACGGCTGCTG
1 GCCGTAGCACGGCTGCTG
5204330 GC
1 GC
5204332 TCTGGCCGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.34, G:0.42, T:0.16
Consensus pattern (18 bp):
GCCGTAGCACGGCTGCTG
Found at i:5204336 original size:24 final size:25
Alignment explanation
Indices: 5204304--5204355 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
5204294 GCCGTAGCCC
*
5204304 GGCTGCTGGCCGTA-GGACGGCTGCT
1 GGCTGCTGGCCGTACGG-CGACTGCT
5204329 GGCT-CTGGCCGTACGGCGACTGCT
1 GGCTGCTGGCCGTACGGCGACTGCT
5204353 GGC
1 GGC
5204356 CGTAACCGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.08, C:0.31, G:0.42, T:0.19
Consensus pattern (25 bp):
GGCTGCTGGCCGTACGGCGACTGCT
Found at i:5204356 original size:18 final size:16
Alignment explanation
Indices: 5204329--5204379 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 16
5204319 GACGGCTGCT
5204329 GGCT-CTGGCCGTACG
1 GGCTGCTGGCCGTACG
5204344 GCGACTGCTGGCCGTAACCG
1 G-G-CTGCTGGCCGT-A-CG
5204364 GGCTGCTGGCCGTACG
1 GGCTGCTGGCCGTACG
5204380 AGGGGGCACC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.78 0.00 0.23
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 3 0.10
18 19 0.61
19 2 0.06
20 3 0.10
ACGTcount: A:0.10, C:0.33, G:0.39, T:0.18
Consensus pattern (16 bp):
GGCTGCTGGCCGTACG
Found at i:5204411 original size:18 final size:18
Alignment explanation
Indices: 5204388--5204422 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5204378 CGAGGGGGCA
*
5204388 CCGTAGCCGCCCTGCTGG
1 CCGTAGCCACCCTGCTGG
5204406 CCGTAGCCACCCTGCTG
1 CCGTAGCCACCCTGCTG
5204423 CGGAGCCTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.46, G:0.29, T:0.17
Consensus pattern (18 bp):
CCGTAGCCACCCTGCTGG
Found at i:5207891 original size:18 final size:17
Alignment explanation
Indices: 5207863--5207896 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
5207853 GCTCCACCCT
5207863 CGCGCCCGGTCATCGTC
1 CGCGCCCGGTCATCGTC
5207880 CGCGCACCGGTCATCGT
1 CGCGC-CCGGTCATCGT
5207897 TATCGCGACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.09, C:0.44, G:0.29, T:0.18
Consensus pattern (17 bp):
CGCGCCCGGTCATCGTC
Found at i:5207955 original size:15 final size:15
Alignment explanation
Indices: 5207935--5207979 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
5207925 CCGCCACGGA
5207935 GTCCTACGCTGAGTC
1 GTCCTACGCTGAGTC
** *
5207950 GTCCTATACGGAGTC
1 GTCCTACGCTGAGTC
5207965 GTCCTACGCTGAGTC
1 GTCCTACGCTGAGTC
5207980 CGGGTACCGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.27
Consensus pattern (15 bp):
GTCCTACGCTGAGTC
Found at i:5208224 original size:18 final size:17
Alignment explanation
Indices: 5208203--5208251 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
5208193 GCAGTCCGCC
*
5208203 TGGACCGAGCAGGATTCG
1 TGGACC-AGCAGGACTCG
*
5208221 TGGAGCAGGCAGGACTCG
1 TGGACCA-GCAGGACTCG
5208239 TGGAACCAGCAGG
1 TGG-ACCAGCAGG
5208252 CGTCCTGGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 22 0.85
19 3 0.12
ACGTcount: A:0.24, C:0.22, G:0.41, T:0.12
Consensus pattern (17 bp):
TGGACCAGCAGGACTCG
Found at i:5218973 original size:15 final size:15
Alignment explanation
Indices: 5218953--5218983 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5218943 TGATTCTCAC
5218953 AACATCGCCCTCGAA
1 AACATCGCCCTCGAA
5218968 AACATCGCCCTCGAA
1 AACATCGCCCTCGAA
5218983 A
1 A
5218984 CCTCGACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.39, G:0.13, T:0.13
Consensus pattern (15 bp):
AACATCGCCCTCGAA
Found at i:5226826 original size:24 final size:24
Alignment explanation
Indices: 5226777--5226836 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
5226767 GGAAGCTCGC
* *
5226777 CGGCGGCGACGCCGTCGGACACGG
1 CGGCGGCGAAGCCGTCGGACAAGG
*
5226801 CGGCGGCGAAGGCGTCGG-CGAAGG
1 CGGCGGCGAAGCCGTCGGAC-AAGG
5226825 C-GCGGCGGAAGC
1 CGGCGGC-GAAGC
5226837 GCAGGCGCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.15, C:0.32, G:0.50, T:0.03
Consensus pattern (24 bp):
CGGCGGCGAAGCCGTCGGACAAGG
Found at i:5231468 original size:18 final size:18
Alignment explanation
Indices: 5231437--5231490 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
5231427 GCGCTCGGGC
* *
5231437 AGCACCATCTCGACGGCG
1 AGCACCAGCCCGACGGCG
5231455 AGCACCAGCCCGA---CG
1 AGCACCAGCCCGACGGCG
*
5231470 AGCACCAGCCCGGCGGCG
1 AGCACCAGCCCGACGGCG
5231488 AGC
1 AGC
5231491 GCACCTACGG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 14 0.47
18 16 0.53
ACGTcount: A:0.22, C:0.43, G:0.31, T:0.04
Consensus pattern (18 bp):
AGCACCAGCCCGACGGCG
Found at i:5231473 original size:15 final size:15
Alignment explanation
Indices: 5231453--5231481 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5231443 ATCTCGACGG
5231453 CGAGCACCAGCCCGA
1 CGAGCACCAGCCCGA
5231468 CGAGCACCAGCCCG
1 CGAGCACCAGCCCG
5231482 GCGGCGAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.48, G:0.28, T:0.00
Consensus pattern (15 bp):
CGAGCACCAGCCCGA
Found at i:5241563 original size:30 final size:30
Alignment explanation
Indices: 5241527--5241672 Score: 220
Period size: 30 Copynumber: 4.9 Consensus size: 30
5241517 CGCCGCCGCA
* *
5241527 CCGCAGCAGCAATTCACCCCACCGCCACCG
1 CCGCAGCAGCAGTTCACCCCACCGCCACCC
* *
5241557 CCGCAGCAGCAGTTCACGCCACCGCCACCG
1 CCGCAGCAGCAGTTCACCCCACCGCCACCC
* *
5241587 CCGCAGCAGCAGTTCACGCCACCGCCGCCC
1 CCGCAGCAGCAGTTCACCCCACCGCCACCC
* *
5241617 CCGCAGCAGCAATTCACCCCACCACCACCC
1 CCGCAGCAGCAGTTCACCCCACCGCCACCC
5241647 CCGCAGCAGCAGTTCACCCCACCGCC
1 CCGCAGCAGCAGTTCACCCCACCGCC
5241673 CACGCAGCAG
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 106 1.00
ACGTcount: A:0.21, C:0.53, G:0.18, T:0.07
Consensus pattern (30 bp):
CCGCAGCAGCAGTTCACCCCACCGCCACCC
Found at i:5247656 original size:18 final size:18
Alignment explanation
Indices: 5247633--5247667 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5247623 GCCAGAACGG
*
5247633 CAGCTCGGCCGCGCGGTC
1 CAGCTCGGCCGCACGGTC
5247651 CAGCTCGGCCGCACGGT
1 CAGCTCGGCCGCACGGT
5247668 GCGCCCAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.43, G:0.37, T:0.11
Consensus pattern (18 bp):
CAGCTCGGCCGCACGGTC
Found at i:5289451 original size:22 final size:22
Alignment explanation
Indices: 5289402--5289445 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5289392 CTCCGGATGG
5289402 GCGGTCCGGGCTGCGGTGGTCA
1 GCGGTCCGGGCTGCGGTGGTCA
5289424 GCGGTCCGGGCTGCGGTGGTCA
1 GCGGTCCGGGCTGCGGTGGTCA
5289446 TGGGTCGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.05, C:0.27, G:0.50, T:0.18
Consensus pattern (22 bp):
GCGGTCCGGGCTGCGGTGGTCA
Found at i:5299411 original size:27 final size:27
Alignment explanation
Indices: 5299381--5299434 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
5299371 GCCGCGGTCC
5299381 GCCCGGCCGCGCGCTGAGCGGGCTCAG
1 GCCCGGCCGCGCGCTGAGCGGGCTCAG
5299408 GCCCGGCCGCGCGCTGAGCGGGCTCAG
1 GCCCGGCCGCGCGCTGAGCGGGCTCAG
5299435 CCGATCCGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.07, C:0.41, G:0.44, T:0.07
Consensus pattern (27 bp):
GCCCGGCCGCGCGCTGAGCGGGCTCAG
Found at i:5304731 original size:15 final size:15
Alignment explanation
Indices: 5304711--5304740 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5304701 CACGATGCCC
5304711 ACCTCGGCCACCCGG
1 ACCTCGGCCACCCGG
5304726 ACCTCGGCCACCCGG
1 ACCTCGGCCACCCGG
5304741 CCCACCCGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.53, G:0.27, T:0.07
Consensus pattern (15 bp):
ACCTCGGCCACCCGG
Found at i:5325968 original size:15 final size:16
Alignment explanation
Indices: 5325950--5325984 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5325940 AGAAGCTGTC
*
5325950 GTCGACGCCGGGC-CG
1 GTCGACGCCGAGCACG
5325965 GTCGACGCCGAGCACG
1 GTCGACGCCGAGCACG
5325981 GTCG
1 GTCG
5325985 CGAAGGCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.11, C:0.37, G:0.43, T:0.09
Consensus pattern (16 bp):
GTCGACGCCGAGCACG
Done.