genome.fa.s1573.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

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: scaffold211
Parameters: 2 7 7 80 10 50 1000
Length:  2193984

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 704 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)
1623655--1623818	81	2.0	81	84	4	215	37	19	18	24	1.94
1626643--1626679	18	2.1	18	94	0	65	45	8	10	35	1.69
1626685--1626743	29	2.0	29	90	0	91	37	13	0	49	1.43
1634348--1634420	19	3.9	18	72	11	58	49	1	2	46	1.24
1634469--1634631	43	3.7	43	75	13	150	25	14	28	31	1.95
1639318--1639428	25	4.4	25	80	4	100	33	23	18	25	1.97
1641261--1641304	22	2.0	23	90	4	72	56	2	0	40	1.11
1643771--1643823	26	2.0	26	92	0	88	33	13	13	39	1.83
1648733--1648759	8	3.4	8	100	0	54	51	11	0	37	1.37
1650310--1650359	18	2.8	18	82	8	57	6	30	4	60	1.39
1650332--1650373	15	2.5	18	85	11	54	4	23	0	71	1.05
1653265--1653291	8	3.4	8	100	0	54	51	11	0	37	1.37
1658580--1658622	15	2.9	15	93	3	70	41	6	6	44	1.58
1669710--1669752	3	14.3	3	100	0	86	32	0	0	67	0.91
1670960--1671313	176	2.0	177	99	0	701	36	8	6	48	1.59
1672108--1672271	67	2.4	67	82	6	188	39	6	15	39	1.72
1671942--1672490	251	2.2	252	81	7	616	37	7	18	35	1.80
1672330--1672372	21	2.0	21	86	8	61	41	2	13	41	1.57
1672356--1672490	70	2.0	68	81	8	157	38	9	18	33	1.83
1672657--1672795	70	2.0	70	86	8	194	38	7	16	36	1.78
1675349--1675427	31	2.5	31	77	6	88	32	30	12	24	1.92
1675687--1675745	30	2.0	30	83	6	75	28	15	25	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1680787--1680848	26	2.4	26	86	0	97	22	11	29	37	1.89
1681226--1681302	39	2.0	39	94	0	136	36	15	25	22	1.93
1681945--1681995	23	2.2	23	89	6	77	41	19	9	29	1.84
1686856--1686994	45	3.1	45	97	0	260	29	28	16	25	1.97
1687962--1688053	35	2.6	35	76	11	98	32	20	14	32	1.92
1689635--1689723	38	2.3	38	88	0	124	21	22	12	43	1.85
1689848--1689917	20	3.5	20	72	1	70	22	22	21	32	1.98
1689829--1689907	40	2.0	40	85	5	106	26	21	18	32	1.97
1701078--1701143	31	2.1	31	85	0	87	27	33	13	25	1.94
1704427--1704464	15	2.5	15	84	16	60	7	26	0	65	1.19
1704475--1704540	19	3.4	19	82	14	64	4	15	4	75	1.12
1707862--1707927	31	2.1	31	85	0	87	25	34	15	24	1.94
1709404--1709448	22	2.0	22	87	8	65	28	0	17	53	1.44
1710141--1710249	52	2.1	52	100	0	218	36	18	11	33	1.86
1724349--1724380	13	2.5	13	89	0	55	46	15	0	37	1.46
1728888--1728944	21	2.6	22	81	10	64	17	8	28	45	1.78
1731150--1731181	16	2.0	16	100	0	64	12	12	31	43	1.80
1731345--1731382	19	2.0	19	85	10	51	21	42	0	36	1.53
1735498--1735566	21	3.3	21	72	0	75	49	18	17	14	1.80
1735484--1735627	42	3.4	42	87	1	166	47	16	20	15	1.83
1735521--1735632	21	5.3	21	67	12	68	50	15	20	14	1.78
1738565--1738606	20	2.2	19	87	12	59	16	19	0	64	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1742814--1742853	20	2.0	21	85	5	55	40	2	10	47	1.50
1743924--1743956	14	2.4	14	90	5	50	12	9	0	78	0.95
1750431--1750471	11	3.9	11	81	9	50	29	0	12	58	1.34
1751842--1751881	21	1.9	21	100	0	80	55	17	22	5	1.61
1756284--1756312	12	2.4	12	100	0	58	34	41	17	6	1.76
1758450--1758488	18	2.2	17	86	13	53	33	0	20	46	1.51
1780861--1781008	47	3.2	46	79	3	161	20	10	22	45	1.82
1782409--1782492	32	2.5	33	82	3	98	28	13	26	32	1.93
1785542--1785656	50	2.2	52	87	4	162	15	18	33	32	1.92
1792904--1792941	19	2.0	18	90	10	58	47	0	13	39	1.42
1807438--1807624	45	4.2	45	86	4	236	21	16	28	33	1.95
1811783--1811859	32	2.4	32	95	2	138	35	14	22	28	1.93
1814727--1814757	5	6.2	5	100	0	62	41	19	19	19	1.90
1815517--1815553	9	4.1	9	92	0	65	29	10	13	45	1.77
1815607--1815637	9	3.4	9	90	0	53	38	22	12	25	1.90
1818070--1818100	15	2.1	14	94	5	53	0	9	0	90	0.46
1818204--1818234	15	2.1	15	93	0	53	41	0	9	48	1.36
1851280--1851318	12	3.2	12	85	0	51	20	23	5	51	1.67
1851566--1851707	50	2.8	50	79	4	151	23	27	21	27	1.99
1852128--1852305	91	2.0	91	93	0	302	32	23	7	37	1.82
1855772--1855880	40	2.8	40	78	1	112	39	21	18	21	1.93
1855948--1856139	41	4.7	41	86	1	269	20	21	28	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1856414--1856509	7	13.4	7	70	12	52	18	0	33	47	1.49
1856419--1856458	15	2.8	13	85	14	53	15	0	35	50	1.44
1856414--1856466	22	2.5	21	73	14	54	20	0	28	50	1.48
1856773--1856815	21	2.1	20	83	12	52	23	0	37	39	1.55
1856790--1856830	21	2.0	20	85	4	55	19	0	41	39	1.52
1856822--1856890	21	3.2	21	81	2	66	23	0	43	33	1.54
1856850--1856896	22	2.1	22	84	0	58	27	0	34	38	1.57
1857488--1857539	25	2.0	27	85	7	72	51	15	9	23	1.72
1860069--1860374	43	7.1	43	86	2	384	23	17	33	25	1.97
1882274--1882307	16	2.1	17	88	5	52	35	5	20	38	1.77
1882768--1882804	6	6.2	6	100	0	74	67	0	32	0	0.91
1893969--1894249	137	2.0	138	90	3	442	39	7	4	47	1.54
1895617--1895860	45	5.5	44	78	5	186	24	17	13	44	1.85
1895662--1895826	89	1.9	89	92	2	278	23	16	12	47	1.81
1895654--1895860	89	2.3	90	83	5	269	24	17	13	44	1.84
1900266--1900333	25	2.7	24	75	8	64	30	17	20	30	1.96
1914788--1914831	19	2.2	21	88	8	65	20	18	2	59	1.49
1914792--1914837	19	2.4	18	83	16	58	26	15	2	56	1.50
1915885--1916753	288	3.0	286	85	2	1123	33	18	17	30	1.95
1918313--1918392	26	3.0	27	80	7	74	32	15	22	30	1.94
1918342--1918484	26	5.4	26	76	2	97	25	14	25	34	1.94
1918428--1918498	26	2.7	26	86	0	97	22	12	29	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1924167--1924483	27	11.9	27	79	9	285	18	17	19	44	1.87
1924183--1924483	81	3.8	81	84	3	344	18	17	20	44	1.87
1924167--1924483	54	5.9	54	81	6	351	18	17	19	44	1.87
1925492--1925526	5	7.0	5	86	0	52	77	2	2	17	1.02
1926484--1926514	14	2.2	14	94	0	53	38	0	41	19	1.51
1934686--1934726	17	2.4	17	84	8	57	7	14	2	75	1.12
1939149--1939191	18	2.3	19	84	4	52	20	4	6	67	1.33
1942495--1942548	23	2.3	23	96	0	99	12	3	46	37	1.60
1948764--1948794	15	2.1	15	93	0	53	41	25	9	22	1.84
1951997--1952487	247	2.0	244	89	1	757	17	17	15	49	1.79
1952436--1952487	17	3.5	14	76	20	52	3	21	0	75	0.97
1960403--1960462	26	2.3	26	85	0	75	23	18	18	40	1.92
1960482--1960693	29	7.3	29	73	7	110	24	15	20	39	1.91
1960532--1960685	58	2.7	58	75	8	136	24	14	20	40	1.90
1962978--1963019	22	2.0	22	85	4	59	28	0	11	59	1.33
1963571--1963601	16	1.9	16	93	0	53	51	16	6	25	1.68
1963902--1964074	43	4.0	43	100	0	346	34	11	25	28	1.91
1964842--1964903	11	5.6	11	77	7	54	37	48	4	9	1.57
1964842--1964903	22	2.8	22	80	0	70	37	48	4	9	1.57
1970839--1970863	12	2.1	12	100	0	50	52	16	16	16	1.76
1994698--1994757	18	3.3	18	75	9	59	28	0	3	68	1.05
1994698--1994739	19	2.3	19	87	4	59	26	0	2	71	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1994712--1994771	19	3.4	18	75	8	52	26	0	5	68	1.10
1995988--1996078	42	2.2	40	77	9	94	20	27	28	23	1.99
1996267--1996294	3	9.3	3	100	0	56	67	0	0	32	0.91
2007098--2007135	2	19.0	2	100	0	76	0	50	0	50	1.00
2013420--2013642	29	7.7	29	74	8	114	40	20	13	25	1.89
2013425--2013624	58	3.5	56	77	7	179	42	19	13	25	1.87
2017412--2017440	14	2.0	15	93	6	51	58	0	0	41	0.98
2020649--2020695	24	2.0	24	87	8	69	46	2	0	51	1.13
2028334--2028575	121	2.0	120	97	0	457	42	0	4	52	1.29
2028525--2028623	48	2.1	48	94	0	171	44	2	8	45	1.44

Tables:   1   2   3   4   5   6