genome.fa.s145.2.7.7.80.10.50.1000.8.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: Scaffold145
Parameters: 2 7 7 80 10 50 1000
Length:  2608604

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

This is table  8  of  15  ( 1729 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)
1410527--1410561	15	2.3	15	90	0	52	48	8	5	37	1.58
1411757--1411794	20	1.9	20	88	0	58	50	0	0	50	1.00
1421291--1421357	30	2.3	30	80	15	77	44	0	0	55	0.99
1421495--1421538	22	2.0	22	86	0	61	59	0	4	36	1.18
1421765--1421797	2	16.5	2	100	0	66	51	0	0	48	1.00
1425342--1425390	27	1.9	27	84	12	68	44	0	2	53	1.12
1425797--1425828	2	16.0	2	100	0	64	50	0	0	50	1.00
1426376--1426418	20	2.0	22	86	8	63	48	9	25	16	1.75
1426410--1426445	2	18.0	2	94	0	63	47	2	50	0	1.15
1426945--1426998	23	2.2	24	93	6	92	59	0	9	31	1.29
1433300--1433531	115	2.0	113	88	4	342	31	16	12	40	1.85
1434722--1434759	18	2.1	18	90	0	58	42	0	0	57	0.98
1434725--1434763	19	2.0	20	85	10	53	43	0	0	56	0.99
1434734--1434795	12	5.3	12	71	19	51	45	0	0	54	0.99
1434777--1434816	6	6.7	6	83	11	55	62	2	0	35	1.09
1434784--1434813	13	2.3	13	94	0	51	60	3	0	36	1.14
1436225--1436286	13	4.6	14	73	16	51	32	0	0	67	0.91
1436229--1436317	24	3.4	26	77	19	87	26	0	1	71	0.92
1436261--1436308	9	5.1	10	80	14	50	27	0	0	72	0.84
1436229--1436312	42	2.1	39	73	18	59	27	0	0	72	0.85
1439828--1439886	29	2.0	29	83	6	75	59	1	3	35	1.24
1441035--1441071	17	2.1	18	90	5	58	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441064--1441103	21	1.9	21	85	10	55	45	0	0	55	0.99
1444450--1444476	14	1.9	14	100	0	54	40	0	0	59	0.98
1458306--1458331	3	8.7	3	100	0	52	65	0	0	34	0.93
1458624--1458740	15	7.9	15	69	15	64	42	0	0	57	0.98
1458617--1458703	7	12.4	7	72	12	56	44	0	0	55	0.99
1458630--1458728	52	1.9	52	81	8	121	43	0	0	56	0.99
1458656--1458750	32	2.8	34	77	6	104	42	0	0	57	0.98
1458623--1458758	35	3.6	37	71	21	97	40	0	0	59	0.97
1459020--1459044	2	12.5	2	100	0	50	52	48	0	0	1.00
1459920--1459960	17	2.4	17	84	11	57	19	0	0	80	0.71
1459921--1459958	14	2.9	13	85	11	51	18	0	0	81	0.69
1459920--1459957	20	1.9	19	89	5	58	18	0	0	81	0.69
1460347--1460382	10	3.5	10	92	3	54	22	0	2	75	0.94
1463186--1463218	3	11.0	3	93	0	57	30	0	3	66	1.06
1464724--1464792	20	3.5	20	74	18	74	47	0	0	52	1.00
1464753--1464833	33	2.5	33	89	2	119	46	1	1	50	1.17
1464755--1464845	16	5.6	17	79	10	93	47	1	1	50	1.15
1465056--1465194	5	28.0	5	67	15	58	38	0	0	60	1.02
1465057--1465100	16	2.6	18	82	13	58	45	2	0	52	1.13
1465113--1465172	18	3.5	17	76	17	61	30	0	0	70	0.88
1465093--1465193	37	2.7	39	77	10	111	36	0	0	63	0.95
1465114--1465179	16	3.8	16	79	15	69	28	0	0	71	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465103--1465186	25	3.5	25	72	21	65	34	0	0	65	0.93
1465138--1465201	33	2.0	31	84	6	83	32	1	1	64	1.13
1465433--1465479	23	2.0	24	84	12	62	40	2	2	55	1.24
1467388--1467428	3	13.7	3	100	0	82	34	0	0	65	0.93
1469766--1469800	17	2.1	17	94	0	61	42	0	0	57	0.99
1475140--1475166	14	1.9	14	100	0	54	29	3	0	66	1.09
1478257--1478322	33	1.9	35	85	11	93	43	0	1	54	1.09
1479525--1479567	22	2.0	22	85	0	59	48	0	2	48	1.14
1481107--1481143	17	2.2	18	80	9	51	51	0	0	48	1.00
1481153--1481184	12	2.7	12	95	0	55	46	0	0	53	1.00
1481489--1481530	2	21.0	2	95	0	75	52	0	0	47	1.00
1482137--1482164	2	14.0	2	100	0	56	50	0	0	50	1.00
1482331--1482647	116	2.7	113	81	9	372	28	15	15	40	1.88
1483813--1483843	2	15.5	2	100	0	62	48	0	0	51	1.00
1497665--1497734	30	2.4	27	76	19	70	61	0	0	38	0.96
1497663--1497736	31	2.5	31	85	12	102	60	0	0	39	0.97
1499256--1499304	15	3.4	14	80	8	53	34	2	10	53	1.47
1504847--1504872	13	2.0	13	100	0	52	38	15	15	30	1.88
1512175--1512219	20	2.3	21	81	14	60	35	2	0	62	1.08
1512181--1512219	20	2.0	21	90	10	64	35	0	0	64	0.94
1513922--1513958	16	2.3	17	86	13	60	51	2	10	35	1.51
1515981--1516061	16	5.1	15	72	13	56	61	0	1	37	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1515943--1516059	48	2.5	49	76	9	127	63	0	0	35	1.07
1515978--1516059	24	3.3	26	72	14	66	63	0	1	35	1.02
1516268--1516307	16	2.5	16	87	0	53	50	2	2	45	1.28
1521419--1521452	11	3.2	11	87	4	52	32	0	0	67	0.91
1521546--1521593	20	2.4	20	78	0	60	35	4	4	56	1.38
1521687--1521733	18	2.7	18	78	15	62	36	2	0	61	1.08
1522319--1522356	20	1.9	20	88	0	58	28	5	5	60	1.40
1526756--1526784	3	9.7	3	100	0	58	68	0	31	0	0.89
1528748--1528773	2	13.0	2	100	0	52	0	50	0	50	1.00
1530000--1530033	3	11.3	3	93	0	59	0	2	67	29	1.05
1529990--1530033	12	3.7	12	90	0	61	4	4	63	27	1.33
1532621--1532710	29	3.1	29	75	10	85	46	0	10	43	1.37
1533601--1533633	1	33.0	1	100	0	66	0	0	0	100	0.00
1533851--1534018	47	3.7	45	77	12	191	38	1	3	56	1.24
1533865--1534046	88	2.1	88	100	0	364	39	1	3	56	1.23
1533899--1534038	44	3.2	44	76	11	178	42	1	3	52	1.27
1533896--1534041	47	3.2	47	73	16	164	42	1	3	52	1.26
1536613--1536689	41	1.9	39	89	5	118	44	18	14	23	1.86
1540323--1540415	47	2.0	48	84	2	125	32	19	12	35	1.90
1541918--1541957	2	20.0	2	100	0	80	50	0	0	50	1.00
1542660--1542700	21	2.0	21	95	0	73	53	21	4	19	1.63
1543109--1543182	31	2.3	33	80	13	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1543119--1543189	25	2.7	26	73	6	72	45	0	1	53	1.09
1547635--1547688	26	2.2	25	86	6	74	35	16	14	33	1.90
1551642--1551675	2	17.0	2	87	0	50	52	44	2	0	1.16
1551673--1551714	10	4.3	10	84	3	59	50	11	0	38	1.40
1559439--1559484	24	1.9	24	90	0	74	32	0	6	60	1.22
1561903--1561948	19	2.3	21	85	10	62	43	0	8	47	1.34
1562459--1562516	24	2.4	23	83	8	71	50	1	0	48	1.11
1562905--1562936	2	16.5	2	93	6	57	50	0	0	50	1.00
1563771--1563811	3	13.7	3	89	0	64	68	4	0	26	1.10
1566154--1566210	5	11.2	5	86	3	78	56	1	0	42	1.10
1566769--1566802	16	2.1	16	94	0	59	35	0	0	64	0.94
1566736--1566804	26	2.7	26	75	16	65	37	1	2	57	1.22
1566870--1566921	8	6.8	8	79	20	58	38	0	1	59	1.08
1566844--1566917	21	3.4	22	77	17	75	39	1	1	58	1.15
1566845--1566921	13	5.4	15	71	20	58	38	1	1	58	1.15
1567129--1567202	24	3.0	24	74	16	62	47	4	1	47	1.29
1567723--1567782	2	30.5	2	86	3	86	0	43	1	55	1.10
1573261--1573292	2	16.0	2	93	0	55	0	50	3	46	1.17
1574433--1574602	80	2.1	80	81	5	189	30	5	8	55	1.53
1577058--1577095	2	19.0	2	100	0	76	50	0	0	50	1.00
1577404--1577451	22	2.2	22	85	7	62	52	0	2	45	1.12
1577411--1577456	22	2.1	21	88	8	65	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578003--1578031	2	14.5	2	100	0	58	51	0	0	48	1.00
1581149--1581209	31	1.9	32	86	3	88	54	0	1	44	1.10
1582015--1582128	60	1.9	60	92	0	192	15	36	14	33	1.88
1582157--1582187	3	10.3	3	100	0	62	0	35	0	64	0.94
1583396--1583435	18	2.2	19	86	4	55	67	0	0	32	0.91
1584060--1584123	15	3.9	16	70	24	53	60	0	0	39	0.97
1584060--1584123	17	4.0	15	72	25	51	60	0	0	39	0.97
1583972--1584163	70	2.7	70	79	14	180	59	0	0	39	1.05
1584045--1584150	33	3.0	35	85	12	137	57	0	0	42	0.98
1584102--1584160	29	2.1	28	80	3	64	61	1	0	37	1.07

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