genome.fa.s174.2.7.7.80.10.50.1000.13.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: Scaffold174
Parameters: 2 7 7 80 10 50 1000
Length:  2085601

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  13  of  15  ( 1687 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)
1589547--1589611	13	5.2	13	67	25	50	40	0	0	60	0.97
1590055--1590128	32	2.3	31	81	9	78	52	1	1	44	1.17
1590069--1590128	31	1.9	32	86	10	88	51	1	0	46	1.10
1590421--1590471	25	2.1	24	81	3	57	41	3	0	54	1.19
1590506--1590564	22	2.7	22	86	2	66	62	5	0	32	1.17
1590519--1590564	22	2.1	22	92	4	76	63	6	0	30	1.20
1594543--1594601	15	3.9	15	71	8	57	49	0	0	50	1.00
1594538--1594605	30	2.2	32	86	7	104	47	2	0	50	1.16
1601696--1601734	3	13.0	3	100	0	78	66	0	0	33	0.92
1602336--1602365	2	15.0	2	100	0	60	0	50	0	50	1.00
1603046--1603084	13	3.0	13	85	7	53	46	0	2	51	1.14
1603667--1603717	2	25.5	2	87	0	75	47	0	5	47	1.26
1607870--1607950	24	3.3	23	77	16	81	35	28	9	25	1.88
1607860--1607950	24	3.6	25	76	13	80	36	28	9	25	1.88
1612479--1612605	68	1.9	68	91	0	209	46	14	18	20	1.84
1612499--1612605	34	3.1	34	69	19	96	44	17	17	19	1.87
1620400--1620431	15	2.1	15	94	0	55	37	0	3	59	1.13
1625964--1626001	17	2.2	17	90	0	58	44	2	2	50	1.30
1626759--1626785	2	13.5	2	100	0	54	51	0	0	48	1.00
1629373--1629405	2	16.5	2	93	0	57	48	0	0	51	1.00
1631462--1631503	11	3.8	11	93	0	66	54	0	4	40	1.21
1633402--1633456	24	2.3	25	78	9	60	52	0	1	45	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633957--1634019	21	3.0	21	70	9	56	34	0	4	60	1.18
1636051--1636108	27	2.2	26	90	3	89	36	0	0	63	0.94
1645791--1645816	4	6.5	4	100	0	52	76	23	0	0	0.78
1646337--1646388	16	3.3	16	83	5	70	59	1	0	38	1.08
1648242--1648273	2	16.0	2	93	0	55	50	3	0	46	1.17
1653562--1653592	13	2.5	13	94	5	55	16	0	0	83	0.64
1653562--1653592	6	5.0	6	92	7	53	16	0	0	83	0.64
1658197--1658237	2	20.5	2	100	0	82	51	0	48	0	1.00
1663306--1663340	2	17.5	2	100	0	70	48	0	0	51	1.00
1667933--1667980	23	2.1	23	92	0	78	43	22	22	10	1.84
1669636--1669663	10	2.8	10	100	0	56	89	10	0	0	0.49
1669759--1669823	27	2.4	27	78	14	73	61	0	0	38	0.96
1669802--1669831	15	2.0	15	100	0	60	60	0	0	40	0.97
1669763--1669831	24	2.9	24	72	10	70	59	0	0	40	0.97
1669833--1669881	19	2.8	17	82	11	62	36	0	0	63	0.95
1669833--1669876	19	2.4	18	88	7	63	38	0	0	61	0.96
1670030--1670080	15	3.5	15	76	10	61	52	0	1	45	1.12
1670025--1670080	28	2.0	27	93	3	94	55	0	3	41	1.17
1670030--1670090	15	4.3	15	76	17	58	49	0	3	47	1.18
1670038--1670129	13	6.6	13	68	20	53	44	0	4	51	1.21
1670202--1670262	23	2.7	22	82	2	68	50	11	1	36	1.48
1670286--1670326	19	2.1	20	90	4	66	70	4	2	21	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1670575--1670618	3	14.7	3	95	0	79	63	0	2	34	1.07
1670730--1670773	13	3.3	13	79	17	54	43	2	11	43	1.53
1670918--1670955	19	2.0	19	85	10	51	55	2	0	42	1.14
1671701--1671747	20	2.3	20	78	10	51	55	0	0	44	0.99
1671716--1671767	22	2.4	20	84	12	59	59	1	0	38	1.08
1671717--1671768	21	2.5	21	84	9	63	59	1	0	38	1.08
1672587--1672615	2	14.5	2	100	0	58	51	0	0	48	1.00
1672966--1673003	19	2.0	19	90	10	60	34	0	0	65	0.93
1672961--1673005	19	2.2	20	80	11	56	37	0	0	62	0.96
1672948--1673068	57	2.2	55	78	15	124	38	3	0	57	1.15
1674777--1674808	11	2.9	11	90	0	55	59	0	0	40	0.97
1674775--1674816	11	3.8	11	78	12	50	54	0	0	45	0.99
1675179--1675228	8	6.2	8	75	15	50	40	0	0	60	0.97
1675178--1675228	14	3.1	18	73	23	58	39	0	0	60	0.97
1675202--1675315	5	24.0	5	68	21	59	35	0	2	60	1.17
1675483--1675511	13	2.1	14	93	6	51	75	0	3	20	0.94
1675908--1675945	2	19.0	2	100	0	76	0	50	0	50	1.00
1675945--1676014	2	35.0	2	100	0	140	50	0	0	50	1.00
1676975--1677010	17	2.1	17	100	0	72	16	11	16	55	1.68
1678209--1678235	14	1.9	14	100	0	54	59	0	0	40	0.98
1684405--1684457	19	2.7	20	76	8	54	56	0	0	43	0.99
1691040--1691073	17	2.1	16	88	5	50	38	2	0	58	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691106--1691174	32	2.3	30	82	9	88	30	2	0	66	1.06
1695681--1695729	24	2.0	24	100	0	98	38	24	4	32	1.74
1697792--1697840	19	2.5	19	80	3	53	61	0	2	36	1.08
1699328--1699378	2	25.5	2	100	0	102	49	0	0	50	1.00
1701634--1701685	8	6.2	8	73	8	50	61	0	1	36	1.07
1701634--1701685	17	3.1	16	72	8	50	61	0	1	36	1.07
1707660--1707704	18	2.6	17	82	3	54	42	15	4	37	1.67
1712844--1712885	16	2.7	16	85	3	59	33	0	0	66	0.92
1713387--1713415	15	2.0	15	93	6	51	0	10	0	89	0.48
1714375--1714405	3	10.3	3	100	0	62	67	0	0	32	0.91
1714969--1715051	42	2.0	42	84	13	109	45	0	0	54	0.99
1716385--1716444	31	1.9	32	86	3	86	45	0	0	55	0.99
1724231--1724257	12	2.2	12	100	0	54	62	7	7	22	1.46
1725509--1725576	25	2.4	30	70	27	76	54	0	0	45	0.99
1725548--1725586	19	2.1	19	85	9	53	51	0	0	48	1.00
1725557--1725607	16	3.1	16	78	16	59	41	0	0	58	0.98
1726483--1726511	2	14.5	2	100	0	58	51	0	0	48	1.00
1727288--1727356	11	5.7	11	76	18	66	30	2	0	66	1.06
1727290--1727356	27	2.4	28	87	9	93	31	2	0	65	1.07
1727428--1727478	19	2.8	19	82	5	52	58	0	0	41	0.98
1727469--1727510	20	2.0	22	86	9	61	42	0	0	57	0.99
1727471--1727531	26	2.3	27	88	5	88	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1742439--1742470	2	16.0	2	100	0	64	50	0	0	50	1.00
1745207--1745233	2	13.5	2	100	0	54	48	0	0	51	1.00
1746522--1746713	95	2.0	96	96	1	359	34	15	15	34	1.89
1746829--1746888	9	6.4	9	80	5	66	35	0	0	65	0.93
1746825--1746893	28	2.4	29	90	7	106	37	0	0	62	0.96
1752166--1752199	16	2.1	16	100	0	68	44	11	26	17	1.83
1753801--1753844	17	2.5	17	81	3	52	40	0	0	59	0.98
1755458--1755510	22	2.6	19	76	21	54	58	3	0	37	1.16
1755460--1755505	22	2.1	22	88	8	67	58	4	0	36	1.18
1757091--1757159	32	2.1	32	83	2	84	55	5	1	37	1.33
1757127--1757177	27	1.9	26	84	11	68	50	1	0	47	1.12
1757919--1757959	3	13.3	3	94	5	73	31	0	2	65	1.05
1758300--1758326	2	13.5	2	100	0	54	0	48	0	51	1.00
1765768--1765798	2	15.5	2	93	0	53	48	3	0	48	1.17
1769447--1769471	2	12.5	2	100	0	50	48	0	0	52	1.00
1769668--1769693	2	13.0	2	100	0	52	50	0	0	50	1.00
1770521--1770555	2	17.5	2	100	0	70	48	0	0	51	1.00
1777095--1777131	18	2.2	17	90	9	58	43	0	0	56	0.99
1782545--1782884	170	2.0	171	94	0	592	36	15	17	31	1.90
1786589--1786756	37	4.5	37	87	0	228	25	16	22	36	1.94
1786569--1786808	37	6.4	36	75	6	158	25	17	20	35	1.95
1786578--1786782	74	2.7	74	85	1	266	26	17	21	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800859--1800906	2	24.0	2	95	0	87	47	0	0	52	1.00
1801073--1801107	17	2.1	17	94	5	63	51	0	0	48	1.00
1801019--1801226	69	3.0	69	86	1	292	50	5	7	36	1.55
1811527--1811619	36	2.6	36	83	8	102	47	1	4	47	1.29
1811994--1812042	23	2.0	23	88	7	71	57	0	0	42	0.99
1811979--1812070	29	3.2	28	83	4	103	53	0	3	43	1.17
1812057--1812132	18	4.2	18	75	11	66	51	1	1	46	1.17
1812227--1812307	34	2.5	33	82	9	98	51	0	4	43	1.23
1812076--1812334	36	7.3	37	64	21	110	51	0	3	43	1.25
1812280--1812351	36	2.0	37	81	10	87	51	0	1	47	1.09

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15