NFAR.fasta.2.7.7.80.10.50.500.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Department of Biomathematical Sciences
Mount Sinai School of Medicine
Version 4.00

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: NFA 2003-09-04
Parameters: 2 7 7 80 10 50 500
Length:  6021225

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 836 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505--572	18	3.8	18	96	1	120	22	44	23	10	1.83
2045--2087	22	2.0	22	95	0	77	18	25	30	25	1.98
12582--12658	24	3.2	24	92	0	118	23	31	41	3	1.72
12597--12661	24	2.7	24	97	0	121	24	29	40	6	1.79
33974--34019	21	2.2	21	88	7	67	21	39	36	2	1.66
33981--34019	21	1.9	21	94	5	71	20	38	38	2	1.66
39912--39953	18	2.3	18	83	0	57	2	26	52	19	1.58
63137--63182	18	2.6	18	82	0	56	0	28	50	21	1.49
63127--63240	36	3.3	35	78	12	119	0	28	47	23	1.52
63137--63226	33	2.6	33	82	5	99	0	28	46	24	1.53
68162--68195	14	2.5	13	90	4	50	0	41	55	2	1.15
69975--70018	21	2.2	20	84	11	56	9	31	38	20	1.84
70109--70235	15	8.3	15	68	8	76	10	37	35	17	1.84
70202--70271	36	2.0	35	85	2	95	8	42	34	14	1.76
70247--70275	15	1.9	15	100	0	58	6	44	34	13	1.71
70243--70282	15	2.7	15	81	14	55	7	42	35	15	1.75
70315--70394	15	5.1	15	70	14	54	6	40	37	16	1.74
71481--71513	17	1.9	17	100	0	66	0	24	45	30	1.53
73199--73233	18	1.9	18	88	0	52	2	40	40	17	1.64
77018--77280	78	3.4	78	97	1	492	16	34	39	9	1.82
77852--77884	15	2.2	15	100	0	66	6	54	39	0	1.25
81593--81626	16	2.1	16	94	0	59	26	26	32	14	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93095--93176	27	3.0	27	89	0	119	8	39	41	10	1.71
93624--93695	27	2.7	27	80	0	90	5	37	41	15	1.70
93677--93721	15	3.0	15	76	0	54	8	24	42	24	1.83
93731--93771	15	2.7	15	88	7	57	7	43	31	17	1.76
93960--94003	22	2.0	22	82	8	54	13	29	36	20	1.91
96639--96695	27	2.0	27	83	10	69	12	43	31	12	1.79
109857--109891	17	2.0	18	88	5	54	8	37	42	11	1.72
111486--111553	17	4.0	17	90	5	111	0	26	33	39	1.57
114994--115024	15	2.1	15	100	0	62	19	19	48	12	1.81
115631--115660	15	2.0	15	93	0	51	10	53	30	6	1.60
119214--119295	39	2.1	39	81	4	94	0	34	58	7	1.26
123504--123554	18	2.8	18	87	0	75	19	23	41	15	1.90
124774--124804	15	2.1	15	93	0	53	3	41	54	0	1.16
127511--127540	15	2.0	15	100	0	60	26	33	20	20	1.97
128912--128947	15	2.4	15	100	0	72	22	33	38	5	1.77
131587--131621	18	1.9	18	88	0	52	8	42	37	11	1.72
152254--152298	21	2.1	21	100	0	90	0	33	44	22	1.53
152254--152314	24	2.7	22	90	7	88	1	31	42	24	1.64
152254--152341	45	2.0	45	83	0	113	4	29	43	22	1.73
152254--152340	21	4.0	22	78	12	81	4	28	43	22	1.73
153089--153117	15	1.9	15	100	0	58	34	17	27	20	1.95
162167--162205	6	6.5	6	100	0	78	15	33	51	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
165840--165899	15	4.0	15	86	0	75	18	35	35	11	1.87
165848--165919	30	2.4	30	83	0	81	15	36	34	13	1.87
176438--176608	79	2.2	79	97	0	324	11	38	42	7	1.70
186555--186587	15	2.2	15	94	0	57	9	30	54	6	1.56
193291--193467	79	2.2	80	94	2	320	6	35	37	20	1.79
212304--212364	30	2.0	30	90	6	97	13	47	36	3	1.59
212323--212364	15	2.8	16	85	10	61	11	52	35	0	1.38
221299--221336	21	1.9	20	85	15	53	28	23	44	2	1.67
222430--222461	15	2.1	15	94	0	55	3	21	50	25	1.64
222512--222556	12	3.8	12	93	0	63	8	26	44	20	1.80
242391--242421	15	2.1	15	93	0	53	6	19	58	16	1.59
246136--246173	18	2.1	18	95	0	67	21	34	23	21	1.97
252705--252733	9	3.2	9	100	0	58	20	31	34	13	1.92
256029--256058	9	3.3	9	100	0	60	20	40	26	13	1.89
257027--257102	15	5.8	15	65	34	59	23	25	36	14	1.93
257036--257109	24	3.1	24	100	0	148	24	25	37	12	1.90
258572--258629	26	2.2	26	87	0	80	24	24	29	22	1.99
258884--258934	24	2.1	24	92	0	84	9	39	27	23	1.86
266003--266036	18	2.0	17	88	11	52	29	29	35	5	1.81
268594--268628	17	2.1	17	100	0	70	28	48	17	5	1.69
275186--275227	15	2.8	15	85	0	57	23	47	23	4	1.70
276150--276230	18	4.5	18	85	0	117	6	30	41	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
276158--276227	36	1.9	36	97	0	131	5	30	44	20	1.74
286200--286413	78	2.7	78	97	0	401	5	34	39	21	1.76
297597--297639	21	2.0	21	90	0	68	9	53	23	13	1.69
309231--309267	18	2.1	18	94	0	65	8	40	45	5	1.56
309255--309299	17	2.6	18	85	7	65	2	22	57	17	1.50
322083--322153	24	3.1	24	88	9	96	8	33	40	16	1.79
322094--322179	21	3.8	24	76	15	69	6	33	41	17	1.76
322110--322179	21	3.3	21	82	7	88	7	32	42	17	1.76
361934--361982	24	2.0	24	84	7	64	12	46	30	10	1.74
373970--374161	27	7.1	27	84	2	233	16	39	36	8	1.78
373970--374164	54	3.6	54	87	2	275	15	38	36	8	1.78
373970--374164	81	2.4	81	85	1	266	15	38	36	8	1.78
375017--375163	17	8.8	16	73	10	71	12	38	38	10	1.78
374995--375045	24	2.1	25	85	3	68	9	43	39	7	1.67
374983--375062	41	2.0	41	92	0	133	7	40	42	10	1.67
375053--375139	25	3.4	25	70	25	74	13	35	36	13	1.85
375067--375154	17	5.2	17	80	1	97	13	37	37	11	1.81
375124--375190	8	8.0	8	80	9	80	16	47	34	1	1.56
375139--375190	27	1.9	27	88	0	77	17	48	32	1	1.58
382637--382719	15	5.5	15	86	0	76	34	33	31	0	1.58
382691--382731	15	2.5	16	88	11	57	39	24	36	0	1.56
382637--382722	45	1.9	45	82	0	109	33	33	32	0	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382699--382734	18	2.0	18	88	0	54	38	27	33	0	1.57
390574--390614	15	2.9	15	89	7	59	12	31	29	26	1.92
391979--392038	17	3.5	17	90	0	84	18	53	6	21	1.67
396136--396175	13	3.1	13	92	0	62	15	35	42	7	1.75
409899--409946	22	2.2	21	82	10	53	4	25	60	10	1.47
424152--424198	21	2.2	20	88	7	67	17	46	27	8	1.76
424191--424239	21	2.3	21	100	0	98	8	51	32	8	1.61
424359--424496	54	2.5	54	75	5	136	7	36	40	15	1.76
440596--440631	17	2.1	17	100	0	72	16	19	41	22	1.90
441230--441267	12	3.2	12	85	3	51	0	31	60	7	1.25
443225--443282	18	3.2	18	90	2	89	27	22	43	6	1.79
446477--446510	12	2.8	12	100	0	68	8	58	23	8	1.56
509140--509177	15	2.5	15	87	8	51	7	34	34	23	1.84
528147--528201	27	2.0	27	89	0	83	20	43	27	9	1.81
528609--528679	33	2.2	33	87	10	101	2	40	42	14	1.60
528740--528841	15	6.9	14	73	9	60	1	33	46	18	1.61
528740--528860	30	4.0	30	77	4	109	1	33	45	19	1.61
528740--528855	45	2.6	45	79	6	119	1	32	45	19	1.61
528846--528892	15	3.1	15	79	11	60	2	38	42	17	1.61
528850--528907	30	1.9	29	86	13	82	1	36	44	17	1.59
528867--528917	15	3.4	15	78	5	59	1	35	43	19	1.63
529083--529139	27	2.2	26	82	11	73	8	59	31	0	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547168--547216	18	2.5	20	90	6	75	6	22	55	16	1.63
550832--550864	14	2.4	14	100	0	66	21	33	30	15	1.94
553017--553063	24	2.0	22	84	15	60	12	31	42	12	1.81
560254--560321	18	3.8	18	88	0	100	13	30	39	16	1.86
560315--560362	18	2.7	18	83	9	62	12	29	56	2	1.48
560416--560462	15	3.1	16	78	6	53	19	27	31	21	1.97
568346--568387	22	2.0	22	86	9	61	9	35	47	7	1.64
569760--569803	22	2.0	23	86	4	63	11	34	47	6	1.66
584984--585242	77	3.4	77	91	4	443	15	34	42	8	1.76
586966--586999	17	2.0	17	88	0	50	8	26	38	26	1.85

Tables:   1   2   3   4   5   6   7