genome.fa.s401.2.7.7.80.10.50.1000.11.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: Scaffold401
Parameters: 2 7 7 80 10 50 1000
Length:  1910012

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

This is table  11  of  13  ( 1464 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)
1580583--1580638	22	2.6	21	77	11	60	41	0	0	58	0.98
1580584--1580641	25	2.3	25	79	5	64	37	0	0	62	0.96
1580588--1580637	20	2.3	22	80	13	59	42	0	0	58	0.98
1580988--1581032	22	2.0	22	83	8	56	33	8	4	53	1.52
1581912--1582000	32	2.7	32	78	13	83	46	0	0	53	1.00
1581916--1581959	23	1.9	23	85	0	61	43	0	0	56	0.99
1581952--1581996	20	2.2	20	84	4	54	48	0	0	51	1.00
1582670--1582721	23	2.3	23	77	9	61	57	0	5	36	1.23
1582688--1582725	18	2.1	18	85	9	51	60	0	2	36	1.11
1582723--1582787	27	2.4	28	84	7	80	56	0	0	43	0.99
1582741--1582787	14	3.4	14	76	5	51	55	0	0	44	0.99
1582833--1582881	17	3.1	17	85	8	59	55	2	0	42	1.11
1584451--1584521	22	3.0	22	80	15	81	47	1	0	50	1.09
1584471--1584561	31	2.9	31	88	3	130	45	5	0	49	1.25
1587991--1588015	1	25.0	1	100	0	50	0	0	0	100	0.00
1590306--1590377	24	3.0	24	81	4	83	15	29	22	33	1.94
1597885--1597922	20	2.0	19	85	10	51	28	2	5	63	1.30
1599542--1599603	16	3.8	16	72	15	56	54	0	0	45	0.99
1599542--1599591	16	2.9	17	80	11	57	56	0	0	44	0.99
1599617--1599656	20	2.0	22	85	14	59	37	0	0	62	0.95
1599705--1599747	12	3.4	12	83	6	50	65	0	0	34	0.93
1601241--1601269	2	14.5	2	100	0	58	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)
1601348--1601414	24	2.8	24	68	22	61	41	0	1	56	1.08
1601385--1601456	29	2.5	29	84	8	85	51	0	0	48	1.00
1601410--1601452	21	2.0	21	82	8	52	58	0	0	41	0.98
1601738--1601787	22	2.4	21	80	6	57	56	6	0	38	1.24
1601987--1602012	2	13.0	2	100	0	52	50	0	0	50	1.00
1603214--1603262	19	2.4	21	83	12	59	53	0	0	46	1.00
1605928--1605972	20	2.2	20	84	4	54	44	4	4	46	1.43
1605977--1606026	9	5.6	9	82	0	64	40	0	2	58	1.10
1607516--1607562	2	24.0	2	95	4	87	48	0	0	51	1.00
1612680--1612714	16	2.3	15	95	5	61	88	0	11	0	0.51
1614303--1614363	32	1.9	32	82	0	77	44	16	19	19	1.87
1614484--1614518	13	2.8	13	91	4	54	5	22	2	68	1.24
1615707--1615751	2	22.5	2	100	0	90	48	0	51	0	1.00
1616454--1616485	1	32.0	1	100	0	64	100	0	0	0	0.00
1621751--1621803	22	2.3	23	90	3	81	32	0	0	67	0.91
1622066--1622105	16	2.6	16	88	4	55	37	2	0	60	1.11
1622589--1622627	20	2.0	20	84	0	51	56	2	5	35	1.35
1622776--1622826	22	2.4	21	83	9	68	54	1	0	43	1.11
1624256--1624306	10	5.2	10	75	20	54	43	0	0	56	0.99
1624287--1624330	16	2.8	15	80	12	52	47	0	0	52	1.00
1627226--1627290	34	1.9	34	93	0	112	27	12	6	53	1.61
1630305--1630335	2	15.5	2	100	0	62	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)
1631419--1631506	37	2.5	35	81	3	95	51	0	0	48	1.00
1631457--1631506	12	4.2	12	78	14	59	44	0	0	56	0.99
1631469--1631534	22	3.0	21	80	14	73	53	0	0	46	1.00
1631485--1631552	16	4.4	16	75	15	54	57	0	0	42	0.98
1631469--1631534	21	3.0	21	82	10	80	53	0	0	46	1.00
1632873--1632928	24	2.3	25	78	9	62	50	1	1	46	1.22
1633150--1633195	17	2.8	17	78	18	53	65	0	0	34	0.93
1633150--1633235	15	4.9	18	65	24	51	59	0	0	40	0.97
1633177--1633252	36	2.1	37	85	11	104	51	0	0	48	1.00
1633229--1633279	21	2.4	22	70	9	52	43	3	1	50	1.31
1635551--1635575	2	12.5	2	100	0	50	48	0	0	52	1.00
1638578--1638646	24	3.0	23	77	12	79	60	0	2	36	1.11
1638584--1638622	18	2.2	18	90	0	60	58	0	2	38	1.12
1638598--1638653	21	2.7	21	88	0	85	62	0	1	35	1.06
1638762--1638827	34	2.0	32	88	8	96	40	0	0	59	0.98
1639255--1639286	2	16.0	2	100	0	64	50	0	0	50	1.00
1640565--1640642	32	2.4	30	78	18	77	47	3	0	48	1.20
1643897--1643951	18	2.9	19	75	19	62	45	0	0	54	0.99
1643907--1643990	31	2.5	33	75	9	91	45	0	0	54	0.99
1644307--1644352	21	2.2	21	88	7	67	69	2	6	21	1.22
1645862--1645901	12	3.3	12	92	0	62	50	7	0	42	1.30
1645862--1645901	2	20.0	2	84	0	53	50	7	0	42	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1649131--1649191	22	2.6	24	80	15	74	57	0	1	40	1.08
1649896--1649953	30	2.0	29	83	10	73	56	0	1	41	1.09
1650568--1650614	25	1.9	24	83	12	60	51	0	0	48	1.00
1656151--1656209	29	2.0	29	87	6	84	45	5	1	47	1.34
1661110--1661160	22	2.3	22	86	6	68	29	0	1	68	1.00
1661110--1661160	11	4.6	11	78	7	59	29	0	1	68	1.00
1661116--1661165	27	1.9	25	84	8	64	30	0	2	68	1.01
1661531--1661569	3	13.0	3	94	0	60	61	0	5	33	1.18
1661796--1661842	18	2.8	17	87	9	62	51	0	0	48	1.00
1663867--1663915	19	2.4	20	80	12	55	44	0	0	55	0.99
1663876--1663919	22	2.0	21	87	12	63	38	0	0	61	0.96
1664088--1664118	2	15.5	2	100	0	62	48	0	0	51	1.00
1664373--1664409	14	2.5	16	83	16	53	40	0	0	59	0.97
1667532--1667590	21	2.8	22	85	12	79	38	0	0	61	0.96
1667533--1667590	20	2.8	22	73	23	63	37	0	0	62	0.96
1667583--1667623	16	2.5	17	88	7	59	41	0	0	58	0.98
1668512--1668672	50	3.3	50	86	2	229	33	18	19	29	1.95
1673025--1673195	50	3.4	50	85	1	218	32	21	17	28	1.96
1673353--1673423	35	2.0	36	83	8	92	56	0	0	43	0.99
1673405--1673433	14	2.0	15	93	6	51	72	0	0	27	0.85
1673640--1673687	23	2.1	22	85	11	62	35	0	0	64	0.94
1675859--1675891	2	16.5	2	100	0	66	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682176--1682220	22	2.1	21	87	4	63	51	0	0	48	1.00
1682238--1682269	17	1.9	16	93	6	55	40	3	0	56	1.15
1682978--1683026	8	5.9	8	83	13	55	59	0	0	40	0.98
1689787--1689920	65	2.1	65	85	0	178	50	14	9	25	1.74
1690743--1690773	15	2.0	16	93	6	55	48	0	0	51	1.00
1691568--1691596	2	14.5	2	100	0	58	51	0	0	48	1.00
1699264--1699324	28	2.3	26	85	5	77	31	1	3	63	1.20
1700188--1700232	16	2.8	16	86	0	54	46	2	0	51	1.13
1701257--1701303	19	2.5	18	83	16	60	72	0	0	27	0.85
1701317--1701375	20	3.0	20	82	9	77	42	1	0	55	1.09
1701317--1701374	19	3.0	18	82	12	53	43	1	0	55	1.10
1701985--1702019	3	11.7	3	87	0	52	25	0	40	34	1.56
1702580--1702622	6	7.2	6	94	0	77	32	20	0	46	1.51
1703684--1703715	12	2.7	12	100	0	64	31	9	12	46	1.73
1705302--1705367	10	6.5	10	77	6	62	36	1	0	62	1.05
1705302--1705359	21	2.8	23	80	17	65	37	0	0	62	0.96
1706518--1706571	29	1.9	27	85	7	72	55	1	1	40	1.21
1706970--1707018	20	2.7	18	84	12	57	38	0	2	59	1.09
1706971--1707036	26	2.5	28	83	11	79	34	0	3	62	1.11
1707081--1707118	17	2.2	17	95	0	67	50	2	0	47	1.15
1707902--1707929	3	9.3	3	100	0	56	32	0	0	67	0.91
1708441--1708564	65	1.9	65	81	6	153	52	8	11	27	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709647--1709703	26	2.1	27	90	3	89	33	3	3	59	1.31
1710229--1710263	17	2.1	17	100	0	70	62	0	0	37	0.95
1710267--1710302	11	3.4	11	92	3	56	61	0	0	38	0.96
1710325--1710358	3	11.3	3	100	0	68	35	0	0	64	0.94
1714762--1714808	15	3.2	15	80	11	53	25	0	2	72	0.96
1715100--1715210	55	2.0	56	92	1	188	38	20	16	24	1.92
1715405--1715434	2	15.0	2	100	0	60	50	0	0	50	1.00
1717771--1717818	23	2.0	25	84	8	64	16	16	0	66	1.25
1720821--1720893	16	4.7	15	77	15	69	64	1	0	34	1.02
1729812--1729849	2	19.0	2	100	0	76	0	50	0	50	1.00

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