NFAR.fasta.2.7.7.80.10.50.500.3.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  3  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)
1162243--1162278	18	2.0	18	94	0	63	16	30	44	8	1.77
1162309--1162345	15	2.5	15	100	0	74	18	40	40	0	1.51
1179164--1179208	13	3.5	13	84	0	54	24	28	40	6	1.80
1185087--1185156	21	3.2	21	63	21	54	10	38	41	10	1.72
1185048--1185205	44	3.6	44	91	5	232	9	38	40	11	1.74
1185061--1185229	44	3.8	45	89	5	217	8	37	40	13	1.75
1185649--1185754	21	5.1	21	93	1	169	12	33	39	15	1.84
1191365--1191394	14	2.1	14	100	0	60	20	30	30	20	1.97
1236499--1236567	24	2.9	24	91	0	111	0	39	37	23	1.55
1236507--1236533	9	3.0	9	100	0	54	0	44	33	22	1.53
1260520--1260551	15	2.1	15	94	0	55	6	25	50	18	1.70
1260608--1260635	12	2.3	12	100	0	56	0	35	42	21	1.53
1260713--1260761	16	3.0	16	96	3	89	18	38	30	12	1.87
1266227--1266267	18	2.3	18	100	0	82	4	26	53	14	1.61
1270446--1270512	19	3.5	19	92	8	102	8	31	28	31	1.88
1293166--1293353	77	2.5	77	92	3	310	12	34	44	9	1.73
1296754--1296788	17	2.1	17	100	0	70	28	0	54	17	1.43
1299873--1300327	78	5.8	78	90	6	695	7	36	40	16	1.76
1299873--1300329	157	2.9	157	96	0	833	7	35	40	16	1.76
1312818--1312862	15	3.0	15	86	0	63	20	28	37	13	1.90
1316471--1316710	78	3.1	78	99	0	471	14	30	44	10	1.78
1317355--1317391	19	1.9	19	88	0	56	16	43	18	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1330353--1330409	24	2.4	24	83	13	66	8	43	35	12	1.73
1340414--1340455	23	1.9	23	85	9	61	4	45	42	7	1.52
1365620--1365647	9	3.1	9	100	0	56	0	32	57	10	1.33
1373709--1373744	18	2.0	18	88	0	54	11	52	22	13	1.72
1408684--1408712	15	1.9	15	100	0	58	10	41	48	0	1.37
1412265--1412329	28	2.3	28	76	5	69	10	18	52	18	1.74
1440525--1440549	12	2.1	12	100	0	50	8	48	44	0	1.32
1457946--1457975	15	2.0	15	100	0	60	6	33	33	26	1.83
1460104--1460157	25	2.2	25	82	0	63	12	37	44	5	1.66
1473511--1473562	26	2.0	26	85	7	70	1	44	36	17	1.60
1486245--1486284	21	1.9	21	84	0	53	5	47	32	15	1.66
1487359--1487383	13	1.9	13	100	0	50	0	32	32	36	1.58
1490345--1490374	15	2.0	15	93	0	51	23	46	30	0	1.52
1492278--1492312	18	1.9	18	88	0	52	17	40	42	0	1.49
1501979--1502120	18	7.9	18	88	3	117	0	38	37	23	1.55
1501980--1502166	24	7.8	24	74	7	128	0	35	40	24	1.56
1501979--1502151	36	4.8	36	79	7	145	0	36	38	24	1.56
1501985--1502130	54	2.7	54	80	4	168	0	36	38	24	1.56
1501980--1502151	18	9.2	18	80	7	110	0	36	38	24	1.56
1501980--1502163	6	30.7	6	73	0	80	0	35	40	23	1.55
1501980--1502172	18	11.1	18	81	6	92	0	34	40	24	1.56
1506371--1506404	15	2.3	15	100	0	68	11	17	55	14	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516476--1516515	15	2.7	15	96	0	71	25	25	45	5	1.73
1516573--1516597	12	2.1	12	100	0	50	0	32	52	16	1.44
1516702--1516745	18	2.4	18	80	0	52	15	47	36	0	1.46
1520452--1520477	9	2.9	9	100	0	52	19	34	46	0	1.50
1525130--1525191	6	10.3	6	76	0	52	0	19	51	29	1.47
1525136--1525203	12	5.7	12	80	0	73	0	20	52	26	1.46
1525127--1525191	18	3.6	18	87	0	103	0	21	50	27	1.49
1525127--1525200	36	2.1	36	94	0	130	0	22	50	27	1.50
1525224--1525251	12	2.3	12	100	0	56	0	39	53	7	1.28
1525168--1525260	48	1.9	48	80	4	107	0	31	48	20	1.50
1525224--1525272	12	4.1	12	86	0	53	0	36	51	12	1.40
1536839--1536879	21	2.0	21	95	0	73	12	56	24	7	1.61
1547465--1547641	30	5.9	30	85	0	219	12	25	55	6	1.61
1547465--1547641	15	11.8	15	82	2	131	12	25	55	6	1.61
1547463--1547641	60	3.0	60	87	0	259	12	25	54	6	1.62
1547465--1547662	15	12.9	17	79	10	73	12	25	56	6	1.60
1549233--1549446	30	7.1	30	76	6	227	1	13	59	25	1.45
1549221--1549490	60	4.5	60	93	0	432	3	14	57	25	1.52
1549221--1549490	30	9.0	29	72	6	207	3	14	57	25	1.52
1573218--1573257	18	2.2	18	90	0	62	15	40	37	7	1.75
1573982--1574025	9	5.0	9	88	2	54	0	54	31	13	1.39
1573970--1574025	18	3.3	18	78	9	57	0	55	30	14	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1574004--1574046	21	2.0	21	82	13	52	0	67	30	2	1.03
1574008--1574061	15	3.5	15	84	5	63	0	62	35	1	1.06
1576610--1576653	21	2.1	21	91	0	70	9	38	47	4	1.56
1579822--1579850	15	1.9	15	100	0	58	6	34	44	13	1.71
1580514--1580542	15	1.9	15	100	0	58	44	34	13	6	1.71
1588069--1588113	18	2.5	18	92	0	72	15	37	42	4	1.67
1588341--1588389	24	2.0	24	84	7	64	0	28	53	18	1.45
1588560--1588591	12	2.7	12	95	0	55	12	15	62	9	1.54
1594114--1594148	18	1.9	18	88	11	54	8	28	37	25	1.85
1600408--1600439	12	2.6	13	85	14	50	15	53	25	6	1.65
1605120--1605146	12	2.2	12	100	0	54	0	33	51	14	1.43
1614777--1614814	18	2.1	18	90	0	58	0	26	52	21	1.47
1629534--1629572	15	2.6	15	83	0	51	17	46	23	12	1.83
1630721--1630779	24	2.7	21	74	10	55	20	55	20	3	1.57
1630818--1630882	18	3.6	18	85	0	85	12	56	30	0	1.36
1630839--1630938	48	2.1	47	83	7	121	14	54	32	0	1.40
1630827--1630935	18	6.4	18	70	16	70	14	54	31	0	1.41
1639713--1639772	22	2.7	22	89	5	95	6	41	43	8	1.61
1639800--1639830	15	2.1	15	100	0	62	19	32	19	29	1.96
1644322--1644360	15	2.6	15	87	0	60	25	56	17	0	1.41
1647793--1647840	25	1.9	25	91	0	78	10	41	31	16	1.82
1652425--1652460	18	2.0	18	88	0	54	27	47	22	2	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1663154--1663247	36	2.7	35	84	9	113	19	40	26	13	1.89
1666455--1666636	48	3.8	48	95	0	328	11	22	52	13	1.73
1666455--1666636	12	15.2	12	91	0	265	11	22	52	13	1.73
1667321--1667350	12	2.6	11	90	10	51	10	56	20	13	1.65
1699969--1699993	12	2.1	12	100	0	50	16	40	44	0	1.47
1712451--1712481	15	2.1	15	93	0	53	6	16	54	22	1.64
1721132--1721173	23	2.0	22	86	13	61	7	50	38	4	1.51
1724933--1724970	18	2.1	19	85	5	51	2	36	26	34	1.71
1726917--1726966	24	2.1	24	92	0	82	18	20	48	14	1.82
1726908--1726966	24	2.7	21	78	14	73	15	18	52	13	1.74
1737101--1737142	14	3.0	14	100	0	84	14	42	21	21	1.88
1744167--1744211	15	2.8	17	77	19	51	17	48	33	0	1.48
1749826--1749927	24	4.2	24	72	18	79	5	38	43	12	1.67
1749997--1750021	13	1.9	13	100	0	50	8	28	64	0	1.22
1766725--1766772	24	1.9	26	83	8	64	4	27	54	14	1.59
1786897--1786943	15	3.1	15	75	0	58	19	36	44	0	1.51
1787012--1787041	15	2.0	15	93	0	51	10	40	30	20	1.85
1787161--1787193	15	2.1	16	94	5	59	6	42	30	21	1.77
1809926--1809950	13	1.9	13	100	0	50	28	40	32	0	1.57
1826189--1826679	99	5.0	98	86	4	666	18	41	34	5	1.73
1826189--1826679	198	2.5	198	92	0	829	18	41	34	5	1.73
1842715--1842770	18	3.1	18	80	10	78	0	28	48	23	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1842736--1842797	24	2.6	24	97	0	115	0	35	41	22	1.54
1842715--1842818	36	2.9	36	83	8	106	0	32	45	22	1.53
1842715--1842790	18	3.9	18	71	18	62	0	31	46	22	1.52
1842721--1842797	12	6.4	12	75	11	68	0	33	42	23	1.54
1843178--1843217	15	2.7	15	92	0	62	2	25	62	10	1.39
1868185--1868237	24	2.2	24	89	0	79	9	35	43	11	1.73
1913024--1913085	21	3.0	21	77	17	67	0	58	35	6	1.24
1917043--1917101	15	3.9	15	95	0	100	35	30	33	0	1.58
1917043--1917118	30	2.6	29	87	4	98	34	28	35	1	1.66
1929570--1929612	15	2.9	15	78	0	50	20	32	32	13	1.92

Tables:   1   2   3   4   5   6   7