oyster.v9_M.fa.s3.2.7.7.80.10.50.500.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

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: scaffold150
Parameters: 2 7 7 80 10 50 500
Length:  1854615

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 642 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)
1381330--1381377	1	48.0	1	89	0	51	0	89	0	8	0.44
1381330--1381381	27	1.9	27	88	0	77	0	86	0	11	0.54
1388602--1388642	20	2.0	20	86	9	57	51	12	0	36	1.40
1388698--1388736	15	2.6	15	87	0	51	25	2	17	53	1.56
1390108--1390146	18	2.1	19	85	4	53	35	33	2	28	1.71
1396588--1396710	21	5.9	21	81	0	129	32	19	9	38	1.84
1401768--1401827	26	2.3	26	80	13	70	50	6	15	28	1.69
1401868--1401959	42	2.2	42	100	0	184	45	8	18	27	1.78
1401868--1401961	21	4.5	21	87	0	134	44	8	18	28	1.78
1405476--1405519	2	22.0	2	100	0	88	0	50	0	50	1.00
1406108--1406144	3	12.3	3	94	0	65	35	32	0	32	1.58
1418828--1418860	10	3.2	10	91	8	57	18	9	21	51	1.73
1418828--1418859	11	3.0	11	95	4	57	18	9	18	53	1.71
1419149--1419197	21	2.3	22	79	10	57	22	18	24	34	1.96
1422965--1423017	26	2.2	25	83	10	65	41	9	3	45	1.54
1424589--1424615	2	13.5	2	100	0	54	51	0	0	48	1.00
1426307--1426406	2	50.5	2	88	5	123	0	44	7	49	1.29
1439277--1439319	4	10.8	4	84	0	59	0	41	25	32	1.56
1439278--1439319	12	3.5	12	93	0	66	0	40	26	33	1.56
1439277--1439312	16	2.2	16	100	0	72	0	44	25	30	1.54
1439489--1440366	171	5.2	171	89	2	1307	32	15	26	25	1.95
1439489--1440366	343	2.6	338	89	4	1357	32	15	26	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441055--1441104	23	2.2	23	81	0	55	34	16	10	40	1.81
1441067--1441121	23	2.4	23	96	0	101	27	20	10	41	1.85
1441553--1441985	20	21.7	20	88	3	577	28	18	16	35	1.93
1443105--1443166	19	3.3	19	97	0	115	27	3	27	41	1.71
1444734--1444778	18	2.4	18	82	10	56	75	4	20	0	0.97
1450742--1450838	13	7.5	13	88	8	103	47	5	43	4	1.44
1450766--1450841	2	40.0	2	78	10	79	47	2	47	2	1.30
1459100--1459163	20	3.2	20	63	12	51	32	20	9	37	1.85
1459075--1459177	39	2.6	40	83	6	138	34	18	9	36	1.84
1459596--1459684	39	2.2	40	86	2	117	39	12	16	31	1.86
1459615--1459681	20	3.5	19	69	18	50	40	13	16	29	1.87
1459941--1459997	20	2.8	21	86	5	89	40	15	14	29	1.87
1459941--1460033	41	2.2	41	81	12	102	38	16	15	30	1.89
1471574--1471609	18	2.0	18	100	0	72	11	22	33	33	1.89
1478964--1479054	2	46.0	2	87	2	121	0	43	5	50	1.25
1484488--1484856	180	2.0	180	96	1	686	36	17	15	29	1.92
1487565--1487676	53	2.1	53	93	0	188	28	18	13	39	1.89
1489389--1489413	2	12.5	2	100	0	50	52	0	48	0	1.00
1492221--1492255	2	17.5	2	100	0	70	0	51	0	48	1.00
1499484--1499586	2	52.0	2	91	5	165	50	0	47	1	1.12
1500204--1500299	4	24.5	4	89	4	115	50	7	42	0	1.30
1500384--1502734	39	58.9	39	77	8	2007	39	21	18	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502660--1502868	90	2.3	89	78	6	228	40	16	18	23	1.91
1502786--1502915	49	2.6	50	78	8	131	40	14	18	26	1.89
1503240--1503309	21	3.3	21	86	4	88	37	21	14	27	1.92
1503276--1503353	32	2.5	30	75	6	75	37	26	8	26	1.86
1503781--1503965	50	3.7	50	72	5	158	44	14	19	21	1.86
1504818--1506167	37	37.1	37	72	10	740	42	18	20	18	1.90
1509920--1509980	32	1.9	32	96	0	113	26	13	11	49	1.75
1516361--1516414	2	27.0	2	100	0	108	50	0	50	0	1.00
1516514--1516570	2	28.5	2	96	0	105	49	0	50	0	1.00
1516365--1516665	156	1.9	155	98	0	575	38	9	27	24	1.86
1517445--1517483	2	19.5	2	89	0	60	51	2	46	0	1.14
1520894--1521753	31	27.5	31	84	3	1051	21	26	14	37	1.91
1538174--1538608	174	2.5	168	82	5	525	30	19	19	30	1.97
1539671--1540115	168	2.7	167	87	2	671	30	19	18	31	1.96
1545544--1545577	2	17.0	2	100	0	68	0	0	50	50	1.00
1545577--1545636	2	30.0	2	100	0	120	50	0	50	0	1.00
1555462--1555506	16	2.8	16	77	12	56	13	15	24	46	1.82
1579674--1579703	13	2.4	12	94	5	51	0	0	10	90	0.47
1581973--1582093	24	5.0	24	96	0	224	36	17	13	33	1.88
1582194--1582263	4	17.5	4	100	0	140	25	24	0	50	1.50
1583776--1583806	15	2.0	16	93	6	55	74	0	6	19	1.03
1585576--1585634	2	29.5	2	100	0	118	50	0	49	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586410--1586663	63	4.0	63	90	4	400	30	24	23	21	1.99
1586410--1586663	130	2.0	126	90	4	402	30	24	23	21	1.99
1586807--1587088	77	3.7	77	86	0	395	40	13	15	30	1.85
1586810--1587088	153	1.8	154	88	0	434	40	13	15	30	1.85
1587563--1587798	54	4.4	54	91	1	357	41	13	27	17	1.87
1587885--1588194	33	9.4	33	73	4	230	38	14	24	23	1.92
1587948--1588194	99	2.5	99	78	3	264	37	14	23	24	1.93
1589604--1589657	2	27.0	2	96	0	99	1	48	0	50	1.11
1589734--1589771	2	19.0	2	94	0	67	0	47	0	52	1.00
1589769--1589803	3	11.7	3	100	0	70	0	34	0	65	0.93
1589842--1589922	11	7.9	10	76	22	71	3	3	17	75	1.10
1590413--1590484	26	2.8	26	81	8	83	31	11	23	33	1.90
1590576--1592947	40	59.1	40	89	1	3358	21	23	13	41	1.88
1594630--1594736	26	4.2	26	89	2	171	15	5	38	40	1.71
1595444--1595526	18	4.8	18	82	8	109	38	34	9	16	1.82
1595465--1595514	15	3.1	15	78	15	64	38	38	8	16	1.78
1595945--1595992	9	5.3	9	79	0	60	54	31	2	12	1.49
1596488--1596531	18	2.4	18	80	0	52	47	36	9	6	1.62
1596524--1596558	18	1.9	18	94	0	61	48	40	5	5	1.51
1598751--1598803	15	3.5	15	100	0	106	64	28	7	0	1.21
1600214--1600247	2	17.0	2	100	0	68	50	0	0	50	1.00
1600577--1600716	47	3.0	47	94	2	248	40	17	10	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1601626--1601656	16	2.0	15	93	6	53	45	0	22	32	1.53
1601552--1601737	100	1.9	100	98	0	363	36	11	12	39	1.79
1601862--1601906	21	2.1	21	84	8	56	53	2	4	40	1.33
1605604--1605644	11	3.7	11	93	0	73	29	9	36	24	1.87
1605654--1605683	11	2.7	11	89	0	51	26	30	10	33	1.89
1605714--1605763	11	4.6	11	87	2	66	28	26	10	36	1.88
1605713--1605763	22	2.4	22	93	3	86	27	25	9	37	1.87
1606143--1606180	2	19.0	2	100	0	76	0	50	0	50	1.00
1607400--1607435	1	36.0	1	91	0	54	2	2	0	94	0.37
1607529--1607593	11	5.9	11	92	0	112	30	9	32	27	1.88
1607531--1607593	22	2.9	22	100	0	126	31	9	31	26	1.88
1612109--1612137	13	2.2	13	100	0	58	41	13	6	37	1.72
1612855--1612894	16	2.5	16	87	0	62	0	37	30	32	1.58
1613475--1613505	16	1.9	16	93	0	53	41	16	19	22	1.89
1614848--1614877	12	2.5	12	88	0	51	30	0	6	63	1.20
1624453--1624487	13	2.8	13	87	12	56	8	17	25	48	1.75
1624688--1624788	11	9.1	11	72	4	51	47	27	12	11	1.77
1625556--1625722	85	2.0	85	92	0	280	31	20	14	32	1.93
1628274--1628318	16	2.8	16	93	0	81	40	15	11	33	1.83
1639131--1639180	22	2.3	22	100	0	100	32	12	30	26	1.92
1651541--1651577	18	2.1	18	89	0	56	45	21	5	27	1.73
1651869--1651933	2	32.5	2	100	0	130	0	49	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1658184--1658231	3	16.0	3	100	0	96	33	0	33	33	1.58
1659356--1659405	26	2.0	26	84	4	66	44	2	34	20	1.63
1668491--1668714	110	2.0	110	96	0	412	30	12	12	44	1.79
1689196--1689222	12	2.2	12	100	0	54	7	0	0	92	0.38
1694675--1694755	23	3.6	22	75	12	76	17	1	39	41	1.57
1694912--1694968	18	3.2	18	72	2	53	19	0	40	40	1.51
1695281--1695328	2	24.0	2	100	0	96	50	0	50	0	1.00
1704439--1704469	12	2.6	12	100	0	62	19	58	0	22	1.40
1724537--1724591	27	2.0	27	100	0	110	43	30	10	14	1.80
1738906--1738937	16	2.0	16	100	0	64	43	25	25	6	1.77

Tables:   1   2   3   4   5   6