genome.fa.s324.2.7.7.80.10.50.1000.12.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: Scaffold324
Parameters: 2 7 7 80 10 50 1000
Length:  2336777

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  12  of  16  ( 1878 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)
1646173--1646197	13	1.9	13	100	0	50	68	0	0	32	0.90
1646444--1646476	2	16.5	2	93	0	57	48	0	3	48	1.17
1646640--1646682	17	2.5	18	77	11	54	34	0	6	58	1.25
1646889--1646952	27	2.4	26	85	12	85	64	0	1	34	1.03
1646881--1646973	16	5.7	17	72	16	63	62	1	1	35	1.10
1646890--1646955	21	3.1	20	78	10	60	62	0	1	36	1.05
1646969--1647084	14	8.4	14	68	20	50	56	1	2	39	1.23
1647736--1647761	4	6.5	4	100	0	52	46	0	0	53	1.00
1648155--1648195	21	2.0	20	85	4	55	39	0	0	60	0.96
1648556--1648632	20	3.8	19	73	21	59	44	0	1	54	1.08
1650842--1651201	179	2.0	180	82	5	446	26	16	11	45	1.82
1651602--1651654	16	3.2	16	87	12	65	49	0	5	45	1.26
1651602--1651654	19	3.1	18	87	12	76	49	0	5	45	1.26
1652162--1652209	21	2.3	21	78	7	53	39	0	2	58	1.10
1652622--1652675	19	2.8	19	80	0	72	51	5	3	38	1.43
1652622--1652736	17	6.8	17	69	19	55	54	3	3	38	1.34
1652690--1652756	17	3.9	18	77	11	61	59	0	0	40	0.97
1653394--1653435	21	2.0	21	95	0	75	26	11	0	61	1.30
1660750--1660784	3	11.7	3	100	0	70	31	0	0	68	0.90
1664009--1664033	9	2.8	9	100	0	50	32	24	32	12	1.91
1664812--1664852	20	2.0	20	100	0	82	19	9	14	56	1.66
1665092--1665135	17	2.6	17	82	7	54	70	4	6	18	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1665150--1665212	20	3.2	20	75	20	60	63	11	6	19	1.48
1665182--1665226	20	2.2	21	88	4	65	62	13	6	17	1.52
1668820--1668861	12	3.5	12	86	0	57	45	0	0	54	0.99
1669332--1669356	11	2.3	11	100	0	50	52	0	0	48	1.00
1669874--1669904	2	15.5	2	100	0	62	51	0	0	48	1.00
1670305--1670348	19	2.3	19	88	0	70	65	2	0	31	1.05
1670389--1670444	26	2.2	26	84	12	71	42	0	1	55	1.10
1672685--1672778	29	3.3	29	77	15	108	58	0	1	40	1.05
1672694--1672780	45	2.0	44	84	6	113	57	0	1	41	1.06
1673443--1673521	41	1.9	42	82	7	99	36	2	3	56	1.31
1675260--1675301	12	3.6	12	78	15	52	28	2	0	69	1.01
1676076--1676105	4	7.5	4	92	0	51	30	0	20	50	1.49
1676643--1676696	12	4.5	12	90	0	72	42	1	55	0	1.10
1676656--1676699	2	22.0	2	95	0	79	47	0	52	0	1.00
1677006--1677077	27	2.7	27	91	0	117	41	0	1	56	1.07
1677014--1677087	27	3.0	24	84	9	80	47	0	1	51	1.09
1677169--1677211	22	1.9	23	85	4	61	48	0	0	51	1.00
1677162--1677203	20	2.2	18	84	16	50	47	0	0	52	1.00
1678814--1678846	16	2.1	16	88	11	50	63	0	0	36	0.95
1679091--1679115	3	8.3	3	100	0	50	32	0	0	68	0.90
1679667--1679691	8	3.1	8	100	0	50	36	0	12	52	1.39
1680477--1680535	16	3.7	15	77	8	55	33	0	6	59	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1680494--1680554	32	1.9	32	83	9	81	31	0	9	59	1.30
1681711--1681742	2	16.0	2	93	0	55	46	0	0	53	1.00
1686863--1686892	2	15.0	2	100	0	60	50	0	0	50	1.00
1690258--1690318	31	1.9	32	86	3	88	45	0	0	54	1.00
1690643--1690681	12	3.1	12	85	10	51	43	2	0	53	1.14
1690658--1690754	35	3.0	30	73	19	79	46	1	0	52	1.07
1690658--1690730	17	4.3	18	71	15	66	45	0	0	54	0.99
1690663--1690728	27	2.3	29	74	23	68	45	0	0	54	0.99
1690626--1690730	26	4.1	26	73	16	92	44	1	0	53	1.11
1690634--1690741	26	4.2	26	71	15	80	48	1	0	50	1.11
1691536--1691570	18	1.9	18	88	0	52	28	0	0	71	0.86
1691576--1691609	13	2.6	13	90	9	52	70	2	0	26	1.01
1692896--1693014	60	2.0	60	90	6	188	50	11	12	25	1.74
1694811--1694851	2	20.5	2	100	0	82	51	48	0	0	1.00
1705925--1705966	16	2.7	16	81	3	50	30	0	0	69	0.89
1706767--1706808	22	1.9	22	85	9	59	59	2	4	33	1.31
1707727--1707766	20	2.0	20	100	0	80	30	15	20	35	1.93
1714759--1714831	6	12.3	6	75	13	71	38	0	0	61	0.96
1714763--1714831	11	5.9	11	76	17	68	37	0	0	62	0.96
1714760--1714833	19	4.1	18	72	20	66	37	0	0	62	0.96
1716197--1716225	3	9.7	3	100	0	58	68	0	0	31	0.89
1719007--1719144	67	2.1	67	98	0	267	32	17	18	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722250--1722308	31	1.9	30	89	6	91	59	0	1	38	1.08
1722355--1722405	6	8.8	6	79	12	54	52	0	0	47	1.00
1725566--1725601	17	2.1	17	89	0	54	83	0	16	0	0.65
1728856--1728928	38	1.9	38	91	0	119	24	20	24	30	1.99
1732092--1732133	12	3.4	13	81	18	54	40	0	0	59	0.97
1732128--1732166	8	5.1	8	81	12	55	64	0	0	35	0.94
1732091--1732162	14	5.1	14	73	8	56	51	0	0	48	1.00
1732128--1732166	14	2.6	15	84	12	53	64	0	0	35	0.94
1733796--1733833	2	19.0	2	94	0	67	47	0	52	0	1.00
1735326--1735364	20	2.0	20	85	5	53	48	0	0	51	1.00
1735324--1735399	29	2.6	29	76	12	84	50	0	0	50	1.00
1736094--1736162	34	2.0	34	86	5	95	60	2	1	34	1.20
1736309--1736362	26	2.1	25	82	3	63	42	0	1	55	1.10
1736367--1736408	21	2.0	21	85	4	57	57	0	0	42	0.99
1736348--1736416	32	2.3	29	87	9	102	62	0	0	37	0.96
1742223--1742267	20	2.2	21	84	7	58	44	2	6	46	1.42
1742234--1742272	21	1.9	21	89	5	62	46	0	7	46	1.31
1743013--1743060	24	2.0	24	84	15	64	43	0	6	50	1.27
1743742--1743796	17	3.1	17	80	10	65	63	0	0	36	0.95
1744143--1744186	18	2.4	18	88	3	61	56	0	0	43	0.99
1747568--1747592	2	12.5	2	100	0	50	52	0	0	48	1.00
1749117--1749151	11	3.2	11	87	0	52	34	2	0	62	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749148--1749190	20	2.0	22	86	8	63	62	2	2	32	1.20
1749460--1749537	10	7.5	10	70	16	52	28	1	1	69	1.04
1749486--1749540	22	2.8	20	76	15	60	32	1	0	65	1.03
1750236--1750285	26	1.9	26	88	8	75	48	0	0	52	1.00
1750269--1750309	21	1.9	22	90	5	66	56	0	0	43	0.99
1750270--1750339	21	3.1	21	79	8	59	55	1	0	42	1.08
1751704--1751738	2	17.5	2	100	0	70	48	0	0	51	1.00
1752074--1752132	13	4.6	13	73	10	59	59	3	0	37	1.14
1753093--1753157	12	4.6	15	70	24	52	53	1	0	44	1.09
1753569--1753628	14	4.2	15	81	10	56	31	3	0	65	1.09
1753580--1753628	14	3.4	14	82	2	62	30	4	0	65	1.11
1753569--1753630	13	4.5	14	82	7	56	33	3	0	62	1.11
1753712--1753746	10	3.5	10	85	14	54	62	8	0	28	1.24
1754721--1754747	10	2.7	10	100	0	54	51	0	0	48	1.00
1754795--1754826	15	2.1	16	94	5	57	50	0	0	50	1.00
1754798--1754834	15	2.5	16	83	16	53	48	0	0	51	1.00
1757602--1757815	108	2.0	108	89	3	333	36	6	11	45	1.66
1758256--1758296	19	2.2	19	83	12	50	60	0	2	36	1.10
1760043--1760081	17	2.1	18	86	13	53	48	7	10	33	1.66
1760812--1760849	2	19.0	2	94	0	67	47	0	0	52	1.00
1766144--1766202	30	2.0	30	86	0	82	49	5	1	44	1.34
1766703--1766761	20	3.1	18	83	11	66	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1766712--1766767	20	2.9	18	77	12	58	53	0	0	46	1.00
1768264--1768536	136	2.0	136	98	0	528	34	12	13	39	1.82
1770353--1770416	18	3.6	18	70	21	62	25	1	6	67	1.23
1772588--1772642	24	2.2	26	81	12	71	54	0	7	38	1.28
1773767--1773822	20	2.8	19	83	5	67	37	16	16	30	1.90
1773881--1773906	13	2.0	13	100	0	52	38	15	15	30	1.88
1776133--1776182	21	2.3	21	80	10	57	56	4	18	22	1.58
1777981--1778019	15	2.6	15	91	0	60	51	15	20	12	1.76
1780090--1780128	13	3.0	13	96	0	69	33	15	12	38	1.85
1782552--1782607	20	2.8	19	83	5	67	37	16	16	30	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16