genome.fa.s33.2.7.7.80.10.50.1000.11.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: Scaffold33
Parameters: 2 7 7 80 10 50 1000
Length:  2032796

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  11  of  13  ( 1521 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)
1653100--1653182	32	2.5	33	79	13	91	37	1	2	59	1.19
1653100--1653181	8	10.0	8	73	18	62	36	1	2	59	1.18
1655745--1655791	2	23.5	2	100	0	94	48	0	0	51	1.00
1658521--1658573	26	2.1	25	85	3	70	43	0	1	54	1.11
1658530--1658638	43	2.4	44	85	10	125	39	1	0	57	1.15
1658556--1658644	43	2.1	43	93	0	151	40	3	1	55	1.24
1659328--1659410	25	3.2	25	75	13	71	39	0	2	57	1.12
1659306--1659388	36	2.4	34	80	13	96	40	0	3	55	1.17
1659355--1659392	12	3.1	12	85	14	51	42	0	0	57	0.98
1659376--1659445	17	3.9	17	69	20	52	44	0	2	52	1.15
1659880--1659929	25	2.0	25	85	14	68	60	8	0	32	1.26
1662082--1662307	118	1.9	117	97	0	425	23	17	17	40	1.91
1664903--1664974	29	2.5	29	77	4	83	26	22	15	36	1.93
1667993--1668027	3	11.7	3	100	0	70	68	0	0	31	0.90
1669319--1669372	20	2.7	21	82	8	76	25	0	0	74	0.83
1669319--1669364	6	7.2	6	81	13	56	23	0	0	76	0.79
1669321--1669383	21	3.1	21	70	25	55	25	0	0	74	0.82
1671613--1671661	21	2.3	21	89	0	80	38	14	10	36	1.80
1672591--1673277	342	2.0	342	96	0	1266	23	15	17	43	1.87
1679485--1679514	2	15.0	2	92	0	51	0	53	0	46	1.00
1680428--1680453	7	3.7	7	100	0	52	57	0	0	42	0.98
1682059--1682098	19	2.1	19	86	13	55	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1686194--1686239	19	2.5	19	86	13	62	32	0	0	67	0.91
1690420--1690454	2	18.0	2	94	5	63	48	0	0	51	1.00
1692778--1692812	2	17.5	2	93	0	61	48	2	0	48	1.16
1693914--1693943	15	1.9	16	93	6	53	60	3	10	26	1.45
1694855--1694915	18	3.6	18	70	17	67	44	0	3	52	1.17
1694854--1694988	32	4.2	32	71	16	100	37	2	3	56	1.32
1694857--1694988	63	2.1	61	83	8	158	37	2	3	56	1.30
1694878--1695011	63	2.1	63	92	0	223	33	2	5	58	1.32
1696887--1696927	18	2.2	19	86	4	57	58	0	0	41	0.98
1696901--1696941	20	2.0	21	86	13	59	56	2	0	41	1.13
1696906--1696966	30	2.0	31	87	9	90	52	3	0	44	1.17
1699119--1699148	10	3.0	10	100	0	60	60	0	0	40	0.97
1703096--1703131	15	2.4	15	95	0	63	33	19	11	36	1.87
1706200--1706233	11	3.0	11	91	4	50	23	8	41	26	1.83
1706948--1707020	20	3.6	20	81	3	101	36	13	17	31	1.89
1706965--1707041	21	3.7	21	77	6	86	42	11	16	28	1.84
1706948--1707041	41	2.3	41	94	3	163	39	12	18	29	1.88
1707080--1707105	13	2.0	13	100	0	52	38	15	15	30	1.88
1711167--1711197	15	2.1	15	93	0	53	48	16	22	12	1.80
1713276--1713314	13	3.0	13	96	0	69	30	17	15	35	1.91
1715738--1715810	20	3.6	20	81	3	101	36	13	17	31	1.89
1715755--1715831	21	3.7	21	77	6	86	42	11	16	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1715738--1715831	41	2.3	41	94	3	163	39	12	18	29	1.88
1715870--1715895	13	2.0	13	100	0	52	38	15	15	30	1.88
1717141--1717184	21	2.1	21	95	0	79	40	13	22	22	1.89
1721952--1722082	67	2.0	67	98	0	253	38	12	14	35	1.84
1722753--1722783	16	2.0	15	93	6	53	41	6	0	51	1.27
1727518--1727576	11	5.1	11	76	10	55	45	1	0	52	1.10
1727525--1727576	22	2.2	25	90	10	83	44	0	0	55	0.99
1727541--1727586	14	3.3	15	79	11	53	43	0	0	56	0.99
1727770--1727829	30	2.0	30	87	6	86	30	6	5	58	1.45
1727739--1727816	18	4.1	19	71	19	56	32	2	1	64	1.15
1728002--1728027	13	2.0	13	100	0	52	46	0	7	46	1.31
1728100--1728131	2	16.0	2	93	0	55	46	0	0	53	1.00
1729736--1729787	27	1.9	27	84	7	70	44	0	0	55	0.99
1731600--1731667	11	6.3	11	80	10	77	61	0	0	38	0.96
1731600--1731667	23	3.1	21	81	8	75	61	0	0	38	0.96
1732168--1732213	16	2.9	16	75	15	51	54	2	0	43	1.12
1733149--1733188	16	2.5	16	84	11	55	55	0	2	42	1.13
1734478--1734511	2	17.0	2	100	0	68	50	0	0	50	1.00
1738254--1738320	16	4.2	16	75	3	64	58	2	1	37	1.23
1738274--1738315	21	2.0	21	86	9	59	54	2	0	42	1.13
1739953--1740004	19	2.6	20	80	16	63	42	0	0	57	0.98
1740765--1740811	21	2.3	20	82	17	62	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1740901--1740931	7	4.4	7	100	0	62	74	0	0	25	0.82
1740900--1740940	14	2.8	14	85	7	55	73	2	0	24	0.96
1742602--1742677	15	4.9	15	73	7	64	59	0	1	39	1.06
1742600--1742677	31	2.5	30	84	14	88	58	0	1	39	1.06
1742578--1742677	31	3.0	31	79	16	85	59	0	2	39	1.09
1742590--1742662	37	1.9	38	83	8	96	60	0	2	36	1.11
1742664--1742704	20	2.0	20	85	9	55	51	0	0	48	1.00
1742688--1742737	18	2.8	18	77	22	52	54	0	2	44	1.11
1743238--1743275	13	2.8	14	84	8	51	65	0	0	34	0.93
1747819--1747889	27	2.6	27	88	6	99	46	23	7	22	1.76
1749773--1749818	21	2.1	22	84	4	58	19	30	19	30	1.97
1752386--1752456	27	2.6	27	84	6	90	46	22	7	23	1.76
1753012--1753058	22	2.2	22	85	11	62	40	2	4	53	1.32
1753106--1753136	2	15.5	2	100	0	62	51	0	0	48	1.00
1753387--1753451	28	2.5	26	78	9	71	63	0	1	35	1.04
1753427--1753455	12	2.3	13	94	5	51	68	0	0	31	0.89
1753770--1753801	13	2.3	15	89	10	50	53	0	0	46	1.00
1754550--1754631	25	3.5	22	70	19	60	40	1	0	58	1.06
1757656--1757685	2	15.0	2	92	0	51	46	0	3	50	1.18
1757659--1757694	14	2.6	14	95	0	63	41	0	8	50	1.33
1765889--1765928	3	13.3	3	100	0	80	65	0	0	35	0.93
1765938--1765964	7	3.9	7	100	0	54	88	0	0	11	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1766930--1766984	29	2.0	27	85	7	74	43	9	3	43	1.53
1766994--1767035	20	2.1	20	90	0	66	57	4	2	35	1.33
1772582--1772928	182	1.9	183	96	0	642	31	18	17	32	1.94
1774156--1774194	19	2.0	21	90	10	64	66	2	0	30	1.05
1774322--1774374	18	2.8	18	83	11	54	66	0	7	26	1.18
1774345--1774457	27	4.1	27	71	19	92	61	1	0	36	1.06
1774345--1774457	14	8.3	14	69	24	57	61	1	0	36	1.06
1774349--1774457	8	12.4	8	70	21	60	61	1	0	36	1.07
1776049--1776094	18	2.5	19	79	10	60	36	17	2	43	1.61
1776323--1776378	26	2.2	26	80	6	60	48	3	5	42	1.43
1776324--1776390	34	2.0	34	82	5	82	47	2	5	43	1.43
1776740--1776792	25	2.1	25	89	0	79	49	3	0	47	1.19
1776953--1776995	11	4.0	11	84	6	52	58	0	2	39	1.11
1781440--1781475	17	2.1	17	90	10	56	77	0	0	22	0.76
1781439--1781492	26	2.0	27	82	10	67	74	0	3	22	0.98
1781821--1781870	23	2.1	24	85	7	66	42	0	4	54	1.19
1782485--1782543	7	8.4	7	78	15	52	44	0	1	54	1.10
1782484--1782535	13	3.8	14	78	12	54	42	0	1	55	1.10
1783048--1783083	2	18.0	2	94	0	63	47	0	2	50	1.15
1784117--1784155	17	2.2	18	86	4	53	28	0	2	69	1.02
1784895--1784923	2	14.5	2	100	0	58	0	48	0	51	1.00
1788098--1788124	13	2.1	13	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1790771--1790809	19	2.0	20	85	5	53	35	0	2	61	1.10
1791587--1791639	14	3.7	14	78	14	54	30	1	0	67	1.01
1792003--1792064	29	2.1	31	84	6	83	46	3	11	38	1.56
1793779--1794191	154	2.7	152	78	5	411	37	16	16	28	1.91
1796490--1796530	21	2.0	21	85	9	57	39	9	24	26	1.86
1796813--1796853	22	2.0	21	85	9	57	39	7	9	43	1.65
1797044--1797096	20	2.7	20	85	5	72	37	13	16	32	1.88
1803394--1803445	20	2.5	20	77	20	54	36	23	0	40	1.55
1805627--1805691	32	2.0	32	84	3	85	30	13	16	38	1.88
1805661--1805713	19	2.7	20	88	2	72	32	15	15	37	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13