genome.fa.s106.2.7.7.80.10.50.1000.10.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  10  of  27  ( 3135 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)
1441503--1441591	19	4.8	19	69	18	55	53	0	1	44	1.07
1441503--1441604	37	2.8	37	73	13	95	54	0	1	43	1.11
1441741--1441793	20	2.7	20	71	28	58	33	0	1	64	1.05
1447907--1447940	2	17.0	2	100	0	68	50	0	0	50	1.00
1448418--1448472	24	2.2	26	93	6	96	50	7	7	34	1.58
1448650--1448710	26	2.3	26	94	0	104	47	4	9	37	1.58
1451692--1451730	16	2.4	16	84	16	53	51	0	0	48	1.00
1452002--1452043	14	3.0	14	80	20	52	45	0	0	54	0.99
1452198--1452239	17	2.5	17	84	3	50	26	0	0	73	0.83
1452448--1452489	22	1.9	22	95	0	75	78	0	9	11	0.96
1452511--1452550	21	1.9	21	85	10	55	37	0	2	60	1.11
1452802--1452848	22	2.1	23	88	4	69	36	0	0	63	0.94
1453609--1453640	2	16.0	2	93	0	55	46	0	3	50	1.17
1454669--1454752	44	1.9	44	95	0	150	25	27	10	36	1.89
1463527--1463566	20	2.0	20	85	0	53	52	0	0	47	1.00
1470271--1470321	14	3.6	14	75	12	50	39	0	0	60	0.97
1470916--1470996	21	4.2	18	73	17	65	49	1	2	46	1.23
1471515--1471551	18	2.0	19	89	5	58	45	0	0	54	1.00
1472259--1472291	2	17.0	2	87	6	50	48	3	0	48	1.17
1478949--1479060	38	2.9	36	72	12	91	49	0	0	50	1.06
1479538--1479582	23	2.0	22	82	4	54	48	2	0	48	1.13
1479775--1479818	19	2.4	18	85	14	56	13	0	6	79	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1479842--1479909	20	3.8	19	71	26	60	47	0	1	51	1.09
1479828--1479920	32	2.8	32	84	11	100	46	0	1	52	1.07
1480764--1480845	38	2.1	39	82	6	96	51	0	0	48	1.00
1483555--1483579	13	1.9	13	100	0	50	44	16	0	40	1.47
1484030--1484082	27	1.9	27	92	3	88	41	3	1	52	1.30
1484427--1484493	29	2.3	29	87	5	91	49	1	5	43	1.36
1489633--1489661	12	2.3	13	94	5	51	58	0	0	41	0.98
1490302--1490375	20	3.8	20	73	20	77	36	0	2	60	1.11
1490322--1490355	10	3.4	10	87	0	50	38	0	0	61	0.96
1490307--1490384	8	9.9	8	72	21	51	34	1	2	61	1.18
1490217--1490354	43	3.1	41	73	12	114	39	1	1	57	1.17
1490213--1490374	9	17.3	10	68	20	68	40	1	1	56	1.18
1490212--1490383	20	8.5	20	64	23	67	38	1	1	57	1.19
1490630--1490708	16	4.8	16	75	13	61	50	0	1	48	1.08
1490911--1490946	2	18.0	2	100	0	72	50	0	0	50	1.00
1491945--1491989	11	3.9	11	78	21	56	31	0	0	68	0.89
1492009--1492044	12	3.1	12	88	4	56	27	0	0	72	0.85
1492286--1492371	33	2.7	33	75	13	90	38	0	1	60	1.04
1493153--1493187	18	1.9	18	88	0	52	40	0	2	57	1.14
1498202--1498238	2	18.5	2	89	10	58	48	2	0	48	1.15
1509952--1510020	30	2.3	30	80	14	79	43	0	0	56	0.99
1516026--1516074	3	16.3	3	95	0	89	32	2	0	65	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1517686--1517758	38	2.0	35	84	12	94	41	0	0	58	0.98
1525112--1525166	28	2.0	28	85	0	74	38	27	7	27	1.83
1525539--1525727	104	1.8	105	81	5	240	50	17	5	26	1.67
1532766--1532819	22	2.5	22	81	0	63	33	20	11	35	1.88
1535416--1536126	242	2.9	242	99	0	1413	30	25	14	29	1.95
1545094--1545173	40	2.0	40	90	4	126	30	15	16	38	1.89
1557682--1557770	41	2.2	41	82	13	105	59	1	2	37	1.17
1559197--1559244	22	2.2	22	88	7	71	68	2	0	29	1.01
1560618--1560660	13	3.5	13	75	18	56	39	6	0	53	1.28
1560613--1560660	23	2.1	23	100	0	96	41	8	0	50	1.33
1561014--1561057	18	2.5	17	81	3	61	65	0	0	34	0.93
1561105--1561165	21	3.0	21	76	18	74	44	0	0	55	0.99
1561100--1561167	19	3.3	21	82	12	88	47	0	0	52	1.00
1561212--1561255	12	3.3	13	81	12	54	65	4	0	29	1.12
1561636--1561667	16	2.0	16	93	0	55	6	6	3	84	0.86
1576241--1576282	21	2.0	21	86	9	59	47	0	0	52	1.00
1576484--1576562	30	2.7	29	79	13	81	62	3	0	34	1.14
1581362--1581403	14	3.1	13	86	6	57	69	0	4	26	1.08
1588788--1588816	3	9.7	3	100	0	58	65	0	0	34	0.93
1594739--1594777	19	2.1	19	85	9	53	30	0	23	46	1.53
1595735--1595766	2	15.5	2	93	6	55	50	0	3	46	1.17
1599765--1599930	87	1.9	87	85	2	226	21	18	31	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602193--1602256	24	2.7	23	80	4	74	40	0	1	57	1.08
1604789--1604845	20	3.2	19	76	18	59	63	1	1	33	1.15
1605414--1605442	2	14.5	2	100	0	58	51	0	0	48	1.00
1605801--1605836	15	2.3	16	95	4	65	72	0	0	27	0.85
1605974--1606004	16	1.9	16	93	0	53	61	0	0	38	0.96
1607210--1607271	32	1.9	32	84	12	83	40	0	0	59	0.97
1609309--1609339	2	15.5	2	93	0	53	0	45	3	51	1.17
1612086--1612122	14	2.5	15	83	16	51	27	32	8	32	1.86
1617634--1617679	18	2.6	17	83	13	58	30	4	2	63	1.26
1617634--1617677	16	2.5	17	85	10	54	29	4	2	63	1.26
1617941--1617996	17	3.5	17	75	20	57	44	5	1	48	1.36
1618383--1618421	18	2.1	18	86	13	53	53	0	0	46	1.00
1618596--1618629	12	2.8	12	90	0	50	8	11	0	79	0.94
1618679--1618730	19	2.6	20	75	9	61	57	0	0	42	0.98
1618971--1619036	18	3.5	19	72	19	50	45	0	0	54	0.99
1619887--1619946	26	2.5	24	74	12	68	53	3	0	43	1.17
1620494--1620533	21	1.9	21	89	0	62	55	5	5	35	1.44
1620676--1620757	32	2.5	33	82	4	85	41	0	2	56	1.13
1621024--1622370	673	2.0	674	99	0	2646	24	27	17	29	1.98
1623533--1623565	6	5.3	6	96	3	57	30	18	15	36	1.91
1623904--1623952	16	3.1	16	74	8	55	40	0	0	59	0.98
1626514--1626564	21	2.4	21	86	3	66	35	0	1	62	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1626493--1626579	31	2.9	29	77	14	88	36	0	1	62	1.03
1627185--1627214	9	3.3	9	95	0	51	63	0	0	36	0.95
1628016--1628053	15	2.4	16	82	13	51	50	0	0	50	1.00
1629217--1629321	52	1.9	58	84	11	150	51	0	0	48	1.00
1631600--1631632	12	2.8	12	90	4	50	36	18	12	33	1.88
1631854--1631897	23	1.9	23	90	0	70	40	9	6	43	1.63
1635604--1635665	21	2.9	22	72	18	58	70	0	0	29	0.87
1638242--1638351	29	3.8	29	74	14	75	50	0	0	49	1.00
1638348--1638378	16	1.9	16	93	0	53	51	0	0	48	1.00
1638529--1638599	27	2.4	29	79	11	74	57	4	0	38	1.18
1638528--1638592	29	2.2	29	78	10	69	58	4	0	36	1.19
1638977--1639058	40	2.0	42	83	11	107	45	0	0	54	0.99
1639140--1639201	23	2.8	22	85	11	74	41	1	0	56	1.09
1639391--1639421	2	15.0	2	93	6	53	48	0	3	48	1.17
1641124--1641164	20	2.1	20	86	4	57	43	0	4	51	1.23
1641134--1641171	19	2.0	20	84	5	51	52	0	5	42	1.24
1641599--1641757	80	2.0	77	87	6	230	33	15	22	28	1.95
1641736--1641817	41	2.0	42	90	7	132	41	21	9	26	1.84
1643672--1643735	33	1.9	33	100	0	128	28	17	18	35	1.93
1644050--1644088	2	19.5	2	89	0	60	56	0	0	43	0.99
1649501--1649533	16	1.9	18	88	11	52	27	12	24	36	1.91
1650189--1650357	50	3.4	50	78	9	148	37	17	12	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1650909--1650953	22	2.1	22	84	8	58	60	0	4	35	1.17
1651483--1651524	3	14.0	3	100	0	84	66	0	0	33	0.92
1651813--1651867	21	2.6	21	82	5	67	36	1	10	50	1.48
1651830--1651909	42	1.9	42	82	5	99	32	1	10	56	1.41
1651892--1651964	20	3.7	20	73	7	69	30	2	5	61	1.32
1652523--1652553	2	15.5	2	93	0	53	3	48	0	48	1.17
1656534--1656867	167	2.0	167	100	0	668	40	19	15	23	1.90
1664893--1664944	24	2.2	24	83	12	65	28	0	9	61	1.27
1666731--1666785	28	2.0	27	85	3	74	81	3	1	12	0.89
1673837--1673902	25	2.7	25	92	2	107	65	0	28	6	1.17

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27