genome.fa.s132.2.7.7.80.10.50.1000.9.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: Scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2458301

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

This is table  9  of  15  ( 1722 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)
1452014--1452063	19	2.6	18	84	12	64	38	0	0	62	0.96
1454317--1454347	2	15.5	2	93	0	53	48	0	0	51	1.00
1456755--1456800	22	2.1	22	83	0	56	39	2	2	56	1.24
1457028--1457068	13	3.1	13	85	3	55	24	0	0	75	0.80
1457019--1457060	17	2.4	17	92	4	66	28	0	0	71	0.86
1457018--1457058	19	2.3	17	83	8	55	29	0	0	70	0.87
1457006--1457068	30	2.0	32	90	6	103	28	1	0	69	0.97
1457004--1457082	30	2.7	27	80	14	86	29	2	1	67	1.12
1457155--1457210	9	5.9	10	79	10	55	39	0	5	55	1.23
1457313--1457378	20	3.1	20	74	12	53	46	1	1	50	1.20
1457348--1457409	27	2.3	27	83	10	74	50	0	1	48	1.10
1463183--1463344	85	1.9	88	89	3	258	51	12	22	13	1.74
1468482--1468547	28	2.4	28	80	16	75	31	1	0	66	1.01
1469084--1469130	25	1.9	24	86	4	67	53	2	0	44	1.12
1469456--1469501	18	2.5	18	85	3	65	41	0	0	58	0.98
1469645--1469707	18	3.4	18	74	22	60	47	0	0	52	1.00
1469908--1469967	30	2.0	30	83	6	77	58	5	0	36	1.20
1474334--1474373	18	2.3	18	86	4	64	27	0	0	72	0.85
1474322--1474379	11	5.5	11	76	14	52	27	1	0	70	0.97
1474486--1474530	10	4.7	9	79	15	54	44	0	0	55	0.99
1474486--1474532	19	2.4	19	89	3	67	42	0	0	57	0.98
1480597--1480763	89	1.9	89	93	2	291	52	11	22	13	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1485667--1485699	17	2.1	16	88	11	50	42	0	6	51	1.26
1485718--1485782	27	2.3	28	81	5	69	36	6	4	52	1.47
1485964--1486004	22	1.9	21	85	5	55	56	0	0	43	0.99
1487033--1487082	19	2.6	18	84	12	64	38	0	0	62	0.96
1487481--1487556	32	2.3	35	84	11	106	59	0	0	40	0.98
1492029--1492069	13	3.1	13	85	3	55	24	0	0	75	0.80
1492020--1492061	17	2.4	17	92	4	66	28	0	0	71	0.86
1492019--1492059	19	2.3	17	83	8	55	29	0	0	70	0.87
1492007--1492069	30	2.0	32	90	6	103	28	1	0	69	0.97
1492005--1492083	30	2.7	27	80	14	86	29	2	1	67	1.12
1492149--1492211	9	6.8	9	76	7	54	39	1	3	55	1.25
1492330--1492379	18	2.5	20	84	9	59	48	0	2	50	1.12
1492349--1492415	27	2.5	27	83	11	77	49	0	1	49	1.10
1495891--1495949	30	2.0	30	83	9	77	55	0	0	44	0.99
1496669--1496724	12	5.0	11	78	10	60	51	0	0	48	1.00
1496672--1496729	16	3.3	19	68	22	63	51	0	0	48	1.00
1496669--1496733	33	2.0	33	96	0	121	53	0	0	46	1.00
1503022--1503144	12	10.2	12	75	10	99	0	43	2	53	1.19
1503022--1503118	6	15.7	6	80	6	59	0	43	2	54	1.11
1503022--1503152	18	6.9	18	75	11	84	0	43	2	53	1.18
1503085--1503126	19	2.2	19	83	8	50	0	45	7	47	1.30
1503032--1503152	33	3.8	33	77	5	115	0	43	2	52	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1503744--1503784	3	13.0	3	85	10	55	60	2	2	34	1.23
1505784--1505828	17	2.5	18	82	17	58	57	2	0	40	1.11
1506450--1506474	2	12.5	2	100	0	50	52	0	0	48	1.00
1506474--1506506	2	16.5	2	100	0	66	51	0	48	0	1.00
1507134--1507166	16	2.1	16	100	0	66	42	27	0	30	1.56
1511650--1511687	14	2.8	14	88	4	51	63	0	0	36	0.95
1511650--1511689	21	2.0	20	85	14	55	62	0	0	37	0.95
1513128--1513196	27	2.6	27	90	4	104	37	10	0	52	1.36
1513284--1513339	25	2.2	25	78	6	60	55	5	5	33	1.45
1513953--1514002	19	3.0	15	76	23	55	58	0	0	42	0.98
1513965--1514004	20	2.0	20	90	4	64	57	0	0	42	0.98
1515178--1515345	91	1.9	90	80	8	198	23	11	19	45	1.82
1520300--1520328	15	1.9	15	100	0	58	41	13	10	34	1.79
1521478--1521520	22	1.9	23	85	4	61	48	0	0	51	1.00
1521464--1521538	26	2.9	27	75	18	70	50	0	0	49	1.00
1524959--1525007	17	2.9	17	87	0	71	14	4	42	38	1.64
1524953--1524996	17	2.4	18	85	11	63	13	0	45	40	1.44
1525110--1525139	13	2.3	13	100	0	60	26	0	26	46	1.53
1527335--1527361	2	13.5	2	100	0	54	48	0	0	51	1.00
1535179--1535275	41	2.3	40	81	8	106	39	1	5	54	1.29
1539236--1539270	2	18.5	2	88	11	56	48	0	0	51	1.00
1540318--1540372	2	27.0	2	82	10	67	43	1	3	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1542501--1542538	14	2.6	15	83	8	51	52	2	2	42	1.29
1542611--1542635	4	6.2	4	100	0	50	24	0	0	76	0.80
1542822--1542861	21	2.0	21	90	5	64	42	0	5	52	1.23
1544904--1544962	24	2.4	25	78	13	77	33	1	0	64	1.04
1546825--1546878	27	2.0	28	82	10	67	12	0	11	75	1.04
1547605--1547646	16	2.8	15	89	7	59	59	0	0	40	0.97
1548278--1548317	16	2.5	16	87	0	53	52	0	0	47	1.00
1550076--1550155	13	6.6	12	72	18	60	58	0	0	41	0.98
1550596--1550646	21	2.3	21	80	12	59	33	0	1	64	1.05
1551168--1551246	17	4.2	19	73	20	60	37	3	0	58	1.16
1551129--1551236	23	4.5	23	73	16	69	42	3	0	53	1.18
1551495--1551584	12	8.1	10	72	17	54	48	0	1	50	1.08
1551502--1551585	23	3.7	23	82	6	100	51	0	0	48	1.00
1556594--1556639	20	2.3	20	85	3	58	50	0	4	45	1.21
1559130--1559191	30	2.1	29	85	8	81	30	3	6	59	1.38
1563185--1563221	18	2.0	19	89	5	58	27	0	0	72	0.84
1566534--1566644	26	4.2	26	78	15	104	36	0	0	61	1.09
1567180--1567217	20	1.9	20	89	10	60	44	0	0	55	0.99
1567179--1567225	20	2.5	18	75	21	51	44	0	0	55	0.99
1567190--1567270	32	2.5	32	78	5	83	53	0	0	46	1.00
1567415--1567478	31	2.1	31	83	11	80	57	1	1	39	1.17
1571253--1571294	16	2.6	16	84	3	57	26	2	4	66	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571663--1571697	15	2.4	14	90	4	52	40	0	2	57	1.14
1572255--1572279	13	1.9	13	100	0	50	64	4	0	32	1.12
1577702--1577769	16	4.4	15	69	16	50	58	1	0	39	1.07
1578916--1578962	23	2.0	23	84	8	60	59	0	0	40	0.97
1579211--1579299	33	2.6	33	76	18	94	50	0	0	49	1.00
1579232--1579295	33	1.9	34	93	6	114	50	0	0	50	1.00
1579205--1579305	32	3.2	32	80	6	102	51	0	0	48	1.00
1579910--1579950	17	2.3	18	80	12	50	56	0	7	36	1.27
1580148--1580321	35	5.0	35	77	8	167	33	6	32	27	1.83
1580165--1580321	69	2.2	69	83	8	185	34	6	32	26	1.82
1581888--1581938	19	2.8	18	77	22	61	39	0	1	58	1.09
1581911--1581952	18	2.3	19	79	4	50	45	0	0	54	0.99
1582491--1582529	6	6.5	6	82	11	53	64	2	0	33	1.08
1582499--1582529	13	2.4	13	88	0	53	64	3	0	32	1.09
1583641--1583692	21	2.5	21	93	3	88	48	0	3	48	1.20
1584494--1584575	37	2.2	36	82	10	94	54	0	0	45	0.99
1584531--1584574	21	2.0	21	91	4	70	56	0	0	43	0.99
1584499--1584578	16	4.8	16	73	25	60	52	0	0	47	1.00
1586015--1586047	17	2.0	17	88	5	50	54	0	0	45	0.99
1586950--1587008	27	2.2	27	82	11	68	64	8	0	27	1.22
1586950--1587009	29	2.1	27	82	11	68	63	8	0	28	1.23
1587430--1587505	22	3.4	21	80	14	82	68	6	2	22	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587587--1587626	15	2.8	14	81	7	53	0	22	0	77	0.77
1587592--1587634	16	2.4	18	77	18	54	0	27	0	72	0.85
1587727--1587770	20	2.3	18	88	7	61	70	2	0	27	0.99
1587740--1587778	11	3.5	11	85	3	51	66	0	2	30	1.05
1587926--1587958	16	2.1	16	94	0	57	66	0	0	33	0.92
1587948--1588010	32	2.0	31	81	12	74	61	0	3	34	1.12
1588034--1588109	8	9.8	8	74	14	70	0	17	0	82	0.66
1588033--1588110	22	3.4	22	77	16	86	0	17	0	82	0.68
1588067--1588110	18	2.4	19	85	11	65	0	15	0	84	0.63
1591301--1591346	21	2.1	22	88	4	67	32	19	28	19	1.96

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