oyster.v9_M.fa.s10.2.7.7.80.10.50.500.4.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: scaffold77
Parameters: 2 7 7 80 10 50 500
Length:  1619719

Tables:   1   2   3   4   

This is table  4  of  4  ( 471 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)
1246033--1246444	174	2.4	174	84	4	516	29	20	19	31	1.97
1247962--1248006	2	22.5	2	100	0	90	0	51	0	48	1.00
1249622--1249771	27	5.4	27	70	10	113	33	20	9	37	1.84
1251430--1251473	2	22.0	2	100	0	88	0	50	0	50	1.00
1252970--1253010	13	3.2	13	89	0	64	14	46	9	29	1.77
1254391--1254466	33	2.2	34	90	4	118	38	21	15	25	1.92
1254714--1254853	39	3.6	39	98	0	262	42	17	6	32	1.75
1255010--1255112	35	2.9	35	78	5	109	43	17	12	26	1.84
1258632--1258666	15	2.3	15	95	0	61	40	0	17	42	1.49
1259515--1259748	41	5.7	41	97	0	441	33	15	19	31	1.93
1259475--1259748	123	2.3	123	91	4	454	33	15	19	31	1.93
1259712--1259800	34	2.6	34	80	0	106	33	16	23	25	1.96
1261829--1262391	33	17.2	33	89	1	799	9	17	38	34	1.83
1264851--1264946	50	1.9	50	97	0	183	39	9	9	41	1.70
1271043--1271172	67	2.0	66	85	1	179	28	11	17	42	1.84
1276799--1276843	16	2.8	16	86	0	63	51	24	15	8	1.72
1277799--1277939	20	7.0	20	91	4	239	56	24	0	19	1.42
1277821--1277871	27	2.0	25	88	7	75	62	21	0	15	1.32
1281345--1281373	15	1.9	15	100	0	58	27	6	27	37	1.82
1283374--1283986	39	15.7	39	88	2	838	34	22	20	23	1.97
1288599--1288684	29	3.0	28	86	6	118	18	16	32	32	1.93
1299254--1299374	48	2.5	48	98	0	233	32	32	13	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299284--1299387	24	4.3	24	71	4	84	34	33	10	21	1.88
1308634--1309072	220	2.0	219	100	0	869	25	24	21	28	1.99
1322704--1322801	47	2.1	47	94	0	169	23	10	29	36	1.88
1332369--1332408	2	20.0	2	100	0	80	0	50	0	50	1.00
1334944--1334987	2	22.0	2	100	0	88	50	0	50	0	1.00
1340406--1340456	16	3.2	16	80	2	68	27	25	23	23	2.00
1340721--1340748	2	14.0	2	100	0	56	0	50	0	50	1.00
1342040--1342453	165	2.5	164	82	6	446	29	21	14	34	1.93
1342747--1342840	30	3.1	30	72	6	82	36	21	11	30	1.89
1343379--1343632	30	8.4	30	68	10	140	31	20	14	34	1.92
1343380--1343524	60	2.4	60	92	0	236	28	21	14	35	1.93
1344043--1345186	30	38.2	30	92	0	1696	34	24	14	26	1.94
1349807--1350416	283	2.1	285	91	5	982	26	25	14	33	1.94
1355028--1355575	135	4.0	134	79	5	553	26	22	23	27	1.99
1370598--1370634	10	3.9	10	86	10	51	70	2	18	8	1.25
1370752--1371312	27	20.7	27	85	2	734	18	19	31	31	1.96
1397672--1397752	22	3.7	22	80	3	101	39	14	13	32	1.85
1397694--1397773	21	3.8	21	80	3	97	35	16	13	35	1.88
1397668--1397775	43	2.5	43	90	0	180	36	13	12	37	1.84
1403169--1403232	19	3.1	21	73	15	62	21	9	17	51	1.73
1428071--1428115	24	1.9	23	86	4	63	35	15	11	37	1.83
1428186--1428217	13	2.5	13	94	0	55	18	31	28	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1432544--1432587	22	2.0	22	95	0	79	27	22	20	29	1.99
1434679--1434712	12	2.8	12	90	0	50	5	41	17	35	1.74
1440295--1440919	172	3.6	172	95	0	1126	30	18	14	35	1.91
1446622--1446658	18	2.1	18	89	0	56	32	0	35	32	1.58
1452967--1453009	18	2.5	17	82	14	52	53	4	0	41	1.21
1456846--1456892	2	23.5	2	100	0	94	51	48	0	0	1.00
1462068--1462108	16	2.6	16	88	0	55	34	29	14	21	1.93
1465163--1465191	15	1.9	15	100	0	58	41	6	17	34	1.76
1469982--1470009	12	2.3	12	100	0	56	67	0	7	25	1.15
1472371--1472424	2	27.0	2	100	0	108	0	0	50	50	1.00
1473814--1473844	3	10.3	3	100	0	62	67	0	32	0	0.91
1474260--1474299	18	2.2	18	90	0	62	30	20	15	35	1.93
1491209--1492370	111	10.5	111	91	1	1821	44	16	15	23	1.86
1492630--1492654	12	2.1	12	100	0	50	84	0	0	16	0.63
1493931--1493962	11	2.9	11	95	0	55	50	31	9	9	1.66
1497988--1498025	19	2.1	18	90	9	60	21	26	10	39	1.85
1499192--1499232	2	20.5	2	87	0	55	2	2	46	48	1.28
1505150--1505174	12	2.1	12	100	0	50	32	0	8	60	1.26
1511630--1511679	2	25.0	2	100	0	100	50	0	50	0	1.00
1512577--1512614	2	19.0	2	100	0	76	50	0	50	0	1.00
1514465--1514510	2	23.5	2	95	4	85	47	0	0	52	1.00
1540656--1541022	93	3.9	93	98	0	698	23	14	35	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1544987--1545043	27	2.1	27	80	3	62	35	15	8	40	1.79
1545668--1546586	22	42.0	22	78	6	557	20	13	33	32	1.92
1545675--1546586	44	20.9	44	80	6	845	20	13	33	32	1.92
1546099--1546443	87	3.8	96	80	9	313	22	13	32	31	1.92
1546694--1546727	16	2.1	16	100	0	68	26	32	17	23	1.97
1550290--1550360	2	35.5	2	92	5	117	50	1	46	1	1.18
1551580--1551627	24	2.0	24	91	0	78	20	12	8	58	1.60
1552582--1553537	34	28.2	34	90	2	1415	19	17	15	46	1.84
1556402--1556431	12	2.6	12	94	5	53	0	30	26	43	1.55
1558096--1558244	51	2.9	51	97	0	280	44	16	12	25	1.83
1562322--1562792	32	14.7	32	85	4	574	18	15	26	39	1.90
1567695--1567719	13	1.9	13	100	0	50	20	24	8	48	1.76
1568027--1568061	18	1.9	18	88	0	52	31	20	8	40	1.82
1569676--1569708	15	2.2	15	100	0	66	24	0	6	69	1.10
1571046--1571092	2	23.5	2	100	0	94	0	51	0	48	1.00
1571382--1571427	22	2.0	23	83	8	58	41	4	19	34	1.71
1575472--1575589	16	7.2	16	94	1	200	6	1	37	54	1.37
1577895--1578502	37	16.7	37	81	4	614	43	28	12	16	1.84
1577896--1578502	146	4.2	146	80	5	539	43	28	12	16	1.84
1579601--1579785	27	6.9	27	97	0	352	29	33	8	29	1.86
1580023--1580072	22	2.3	22	96	0	91	44	22	12	22	1.85
1580044--1580130	30	2.9	30	89	3	131	47	19	11	21	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1580111--1580475	22	16.2	22	90	2	541	40	22	14	22	1.90
1580111--1580522	44	9.0	44	88	6	545	41	22	14	22	1.89
1580143--1580218	15	5.6	15	69	23	69	39	22	15	22	1.92
1580143--1580262	15	8.6	15	65	25	66	40	22	15	22	1.91
1580111--1580522	66	6.0	66	87	5	545	41	22	14	22	1.89
1580443--1580505	30	2.1	30	87	0	90	44	23	12	19	1.85
1580473--1580522	22	2.3	22	89	0	73	46	26	10	18	1.80
1582598--1583199	59	10.2	59	93	0	970	33	26	11	28	1.92
1582598--1583199	177	3.4	177	97	0	1123	33	26	11	28	1.92
1583405--1583880	59	8.1	59	92	0	781	33	28	11	26	1.91
1584223--1584400	79	2.3	79	94	0	320	26	27	18	27	1.98
1585503--1585551	12	4.2	12	92	2	64	32	26	40	0	1.56
1585503--1585545	4	10.8	4	89	0	68	30	25	44	0	1.55
1589178--1589225	16	3.0	16	93	0	87	47	25	20	6	1.73
1596358--1596659	163	1.8	164	87	0	453	30	20	13	35	1.91
1601185--1601241	27	2.1	27	100	0	114	45	17	7	29	1.75
1607689--1607765	39	2.0	38	97	0	136	29	20	10	37	1.86
1609407--1609492	22	4.0	22	80	5	88	31	16	43	9	1.79
1609459--1609497	14	2.8	14	96	0	69	30	15	48	5	1.66
1609514--1609564	22	2.3	22	93	0	84	11	41	13	33	1.81
1611575--1611599	12	2.1	12	100	0	50	64	8	12	16	1.49
1615054--1615097	2	22.0	2	100	0	88	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615095--1615133	4	9.8	4	94	0	69	0	23	23	53	1.46

Tables:   1   2   3   4

The End!