genome.fa.s169.2.7.7.80.10.50.1000.12.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: Scaffold169
Parameters: 2 7 7 80 10 50 1000
Length:  2015121

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

This is table  12  of  14  ( 1635 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)
1633008--1633032	12	2.1	12	100	0	50	64	0	0	36	0.94
1633034--1633088	28	2.0	27	82	13	67	41	0	0	58	0.98
1633444--1633490	18	2.7	18	77	12	53	59	0	0	40	0.97
1633760--1633801	21	2.0	22	85	4	59	50	0	0	50	1.00
1634110--1634157	18	2.8	17	79	17	55	58	0	2	39	1.10
1634156--1634196	21	2.0	21	90	4	66	46	4	4	43	1.46
1634912--1635017	7	14.7	7	70	16	56	64	0	0	34	1.00
1634913--1634972	22	2.7	21	82	15	59	70	0	1	28	0.97
1634910--1634980	19	3.9	18	76	18	60	69	0	1	29	0.98
1634910--1634974	12	5.6	11	76	20	62	69	0	1	29	0.98
1634912--1635016	31	3.4	31	79	13	92	64	0	0	34	1.00
1634936--1635015	16	4.9	16	71	13	56	62	0	0	37	0.95
1636899--1636971	32	2.2	34	78	9	80	38	2	4	54	1.34
1642324--1642382	22	2.5	23	72	10	57	38	0	1	59	1.08
1642334--1642381	22	2.1	23	88	3	71	41	0	2	56	1.11
1642617--1642674	29	2.0	30	86	3	82	41	3	5	50	1.42
1643003--1643041	13	2.8	14	84	7	53	79	5	10	5	1.04
1643212--1643246	18	1.9	18	88	11	54	40	0	2	57	1.14
1644194--1644236	15	2.9	15	89	3	61	48	0	2	48	1.14
1649185--1649214	2	15.0	2	100	0	60	50	0	0	50	1.00
1651457--1651504	23	2.1	23	100	0	96	29	43	4	22	1.72
1653988--1654049	30	2.2	27	85	8	79	66	1	0	32	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654923--1654967	20	2.2	20	84	7	56	42	0	0	57	0.98
1654907--1655004	43	2.3	43	80	15	114	37	1	0	61	1.03
1654837--1655005	79	2.2	75	81	15	186	39	1	0	59	1.05
1654961--1655001	17	2.4	17	84	8	57	29	2	0	68	1.03
1655098--1655153	20	2.9	19	78	10	60	55	0	3	41	1.17
1655104--1655151	18	2.7	17	78	9	51	58	0	2	39	1.10
1655135--1655201	32	2.2	29	84	7	80	49	0	0	50	1.00
1655129--1655211	29	2.6	30	78	16	87	51	0	0	48	1.00
1655185--1655232	22	2.3	21	82	7	53	56	2	0	41	1.11
1655110--1655276	56	2.9	53	73	17	147	54	1	0	43	1.12
1655220--1655268	19	2.8	18	79	14	59	59	2	0	38	1.09
1655164--1655275	20	5.7	20	69	23	60	55	1	0	42	1.10
1655591--1655639	22	2.1	23	78	17	57	48	0	0	51	1.00
1655635--1655696	19	3.2	18	72	20	54	48	0	1	50	1.10
1655621--1655683	20	3.3	19	76	10	65	46	0	1	52	1.10
1655606--1655695	20	4.4	20	70	24	64	47	0	1	51	1.08
1656404--1656549	61	2.4	61	82	5	170	30	7	24	36	1.83
1657393--1657437	23	2.0	23	86	0	63	60	4	8	26	1.46
1658050--1658083	2	17.0	2	100	0	68	50	0	0	50	1.00
1658818--1659190	182	2.0	182	95	0	674	42	8	6	43	1.60
1661421--1661462	16	2.5	17	77	14	52	50	7	7	35	1.57
1668512--1668559	15	3.2	15	87	0	60	58	6	33	2	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669349--1669377	15	1.9	15	100	0	58	51	0	48	0	1.00
1670956--1670988	11	3.1	11	91	4	50	39	0	0	60	0.97
1671150--1671176	8	3.4	8	100	0	54	70	0	0	29	0.88
1672133--1672172	20	1.9	22	90	10	66	62	0	0	37	0.95
1672951--1672993	18	2.4	18	84	3	52	51	2	0	46	1.13
1673188--1673214	14	1.9	14	100	0	54	51	3	0	44	1.19
1675294--1675340	14	3.3	14	80	14	60	34	0	0	65	0.93
1675292--1675353	28	2.2	28	83	13	74	35	4	0	59	1.19
1675602--1675630	3	9.7	3	100	0	58	65	0	0	34	0.93
1676046--1676096	13	3.9	14	78	14	56	37	0	1	60	1.08
1676049--1676096	12	3.8	12	78	10	51	37	0	2	60	1.09
1676080--1676122	17	2.5	17	80	0	50	51	0	0	48	1.00
1676087--1676138	21	2.4	23	81	15	58	55	1	0	42	1.10
1676974--1677002	3	10.0	3	92	7	51	65	0	0	34	0.93
1678892--1678938	24	2.0	23	87	4	67	46	0	2	51	1.13
1678947--1679007	26	2.3	26	78	13	72	40	22	0	36	1.55
1679332--1679373	22	1.9	22	90	9	68	38	0	0	61	0.96
1679725--1679754	13	2.3	13	94	0	51	50	3	0	46	1.18
1679753--1679805	27	1.9	27	84	3	70	32	5	9	52	1.57
1684680--1684851	83	2.1	83	98	1	337	37	11	10	40	1.76
1686735--1686787	21	2.5	21	90	9	81	32	9	15	43	1.78
1687617--1687672	26	2.2	26	83	6	69	28	10	16	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1689630--1689696	32	2.1	32	86	5	91	41	4	8	44	1.56
1689856--1689897	13	2.9	14	83	16	59	26	4	4	64	1.33
1691883--1691922	21	2.0	20	85	5	53	52	5	0	42	1.23
1691911--1691968	21	2.9	21	87	10	77	53	1	0	44	1.10
1698950--1699016	32	2.1	32	83	5	82	40	5	10	43	1.63
1701161--1701185	13	1.9	13	100	0	50	48	0	0	52	1.00
1701274--1701312	19	2.1	19	90	4	62	61	7	2	28	1.37
1703075--1703115	11	3.9	11	75	12	50	58	0	0	41	0.98
1710515--1710555	13	3.3	13	83	13	59	60	0	4	34	1.18
1710520--1710554	12	2.9	12	87	12	54	65	0	5	28	1.15
1710659--1710683	12	2.1	12	100	0	50	28	16	0	56	1.41
1712239--1712272	3	11.3	3	100	0	68	32	0	0	67	0.91
1713733--1713778	13	3.4	14	88	5	69	52	0	0	47	1.00
1714098--1714154	16	3.3	17	75	18	55	45	0	0	54	0.99
1714107--1714151	20	2.5	19	76	23	53	48	0	0	51	1.00
1714946--1714996	15	3.4	15	78	8	59	49	1	0	49	1.12
1715638--1715685	6	8.2	6	84	9	55	43	0	4	52	1.20
1715639--1715694	13	4.6	13	76	14	57	42	0	3	53	1.18
1715672--1715725	23	2.3	24	78	15	60	44	0	0	55	0.99
1715696--1715748	21	2.7	19	83	13	63	39	0	0	60	0.97
1715768--1715817	26	2.0	26	92	4	84	58	0	0	42	0.98
1715779--1715833	26	2.1	26	83	6	67	56	3	1	38	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716620--1716661	15	2.8	15	88	0	66	21	7	33	38	1.81
1718325--1718367	20	2.2	20	100	0	86	20	13	11	53	1.71
1722271--1722303	2	16.5	2	100	0	66	48	0	0	51	1.00
1724010--1724038	13	2.1	14	93	6	51	41	0	0	58	0.98
1724141--1724208	15	4.6	15	73	8	50	48	2	0	48	1.16
1724154--1724201	23	2.1	22	84	3	60	45	2	0	52	1.12
1724141--1724211	30	2.4	30	83	6	83	47	2	0	49	1.16
1725225--1725281	2	28.5	2	96	0	105	49	0	1	49	1.11
1727714--1727838	59	2.1	59	95	0	223	33	2	6	57	1.37
1728225--1728249	2	12.5	2	100	0	50	52	0	0	48	1.00
1734557--1734587	2	15.5	2	100	0	62	51	0	48	0	1.00
1736217--1736273	29	1.9	30	89	3	89	35	15	5	43	1.70
1782909--1782950	11	3.9	11	84	3	59	33	0	0	66	0.92
1783058--1783109	12	4.3	12	76	7	52	51	1	3	42	1.31
1783647--1783699	25	2.1	26	89	3	81	39	0	0	60	0.97
1783950--1783976	1	27.0	1	100	0	54	100	0	0	0	0.00
1784497--1784553	21	2.8	21	84	7	64	35	1	0	63	1.05
1784950--1784989	14	2.9	14	85	7	55	40	0	0	60	0.97
1791360--1791394	18	1.9	18	88	0	52	54	5	8	31	1.54
1793127--1793171	21	2.1	21	100	0	90	33	8	22	35	1.85
1798699--1798758	21	2.9	21	85	5	77	33	25	5	36	1.78
1800456--1800512	21	2.7	21	91	0	96	35	10	17	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800568--1800635	19	3.9	19	78	21	85	35	11	14	38	1.83
1800589--1800613	13	1.9	13	100	0	50	36	16	16	32	1.90
1800570--1800632	32	2.0	32	96	0	117	34	12	15	36	1.86
1800675--1800700	13	2.0	13	100	0	52	30	15	15	38	1.88
1800655--1800721	33	2.0	33	88	0	98	25	14	16	43	1.86
1803155--1803225	27	2.6	27	84	6	81	22	32	21	23	1.98
1803208--1803378	52	3.3	51	77	8	175	29	25	12	32	1.93
1803361--1803462	28	3.6	28	89	0	141	24	31	17	26	1.97
1803039--1803437	212	1.9	212	87	4	599	28	26	13	32	1.93
1815606--1815652	9	5.6	8	80	16	51	85	10	4	0	0.74

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