genome.fa.s2294.2.7.7.80.10.50.1000.4.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: scaffold6
Parameters: 2 7 7 80 10 50 1000
Length:  4312818

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

This is table  4  of  14  ( 1587 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)
1187065--1187339	44	6.4	43	73	7	209	28	17	22	31	1.97
1189416--1189699	144	2.0	141	91	2	460	30	13	7	49	1.69
1191846--1191918	28	2.7	28	87	4	96	31	10	23	34	1.89
1191836--1191998	28	5.9	27	72	9	78	30	13	23	32	1.93
1195681--1195726	21	2.2	21	84	7	58	28	8	50	13	1.70
1197788--1197838	14	3.5	14	70	19	50	27	3	1	66	1.20
1197973--1198082	36	3.1	36	90	0	175	22	18	31	27	1.97
1198997--1199100	55	1.9	55	87	0	154	23	17	17	42	1.89
1201650--1201703	22	2.5	22	96	0	99	38	12	5	42	1.67
1204852--1204906	26	2.1	26	89	0	83	40	7	23	29	1.81
1206054--1206121	26	2.6	26	79	9	84	39	14	22	23	1.91
1219407--1219442	17	2.1	17	94	0	63	47	0	11	41	1.39
1219772--1219815	21	2.0	23	82	8	56	34	11	6	47	1.66
1222923--1222962	19	2.2	19	90	4	64	47	0	5	47	1.24
1225121--1225160	14	2.9	14	84	0	53	32	7	17	42	1.77
1225129--1225195	35	1.9	35	87	3	100	31	10	13	44	1.77
1225144--1225183	20	2.0	20	85	0	53	27	12	12	47	1.77
1236170--1236314	54	2.7	54	82	2	157	20	26	32	20	1.97
1236221--1236405	54	3.4	54	76	8	169	24	28	29	17	1.97
1237666--1237702	9	4.1	9	89	0	56	48	13	8	29	1.71
1237751--1237810	30	2.0	30	86	3	84	20	43	0	36	1.52
1238054--1238086	16	2.1	16	88	11	50	24	27	0	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1238054--1238086	15	2.1	16	88	5	50	24	27	0	48	1.51
1238068--1238105	20	1.9	20	88	0	58	21	28	0	50	1.49
1242664--1242800	50	2.7	50	86	0	184	22	30	20	26	1.98
1246826--1246860	12	2.8	12	91	8	52	22	5	25	45	1.74
1251912--1251942	5	6.2	5	100	0	62	38	19	19	22	1.93
1252555--1252614	30	2.0	31	86	3	86	40	0	40	20	1.52
1252798--1252834	9	4.1	9	85	0	56	32	10	13	43	1.79
1253880--1253946	30	2.2	30	78	7	73	44	2	4	47	1.38
1262262--1262363	39	2.6	39	87	1	143	39	4	6	49	1.51
1270265--1270302	19	2.0	19	94	0	67	21	15	18	44	1.86
1275396--1275444	8	6.0	8	90	4	71	57	0	0	42	0.99
1279459--1279677	73	3.0	73	100	0	438	34	15	24	26	1.94
1283125--1283178	21	2.6	21	82	11	74	31	9	35	24	1.87
1283627--1283674	17	2.9	17	84	3	62	20	14	12	52	1.74
1314301--1314383	36	2.3	36	87	0	121	20	18	25	36	1.95
1314895--1314932	19	2.0	19	100	0	76	15	26	15	42	1.87
1318994--1319046	25	2.1	25	96	0	97	28	11	22	37	1.89
1321763--1322118	178	2.0	178	100	0	712	32	19	15	32	1.93
1330881--1330934	28	2.0	27	82	13	67	59	11	14	14	1.62
1332794--1332841	19	2.5	20	86	10	64	4	18	2	75	1.07
1334502--1334670	85	2.0	85	94	0	293	38	10	11	39	1.76
1336255--1336307	24	2.3	23	84	9	65	45	1	3	49	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345017--1345103	33	2.7	32	79	13	106	47	17	9	26	1.77
1345094--1345133	20	2.0	20	100	0	80	45	15	10	30	1.78
1346834--1346898	29	2.2	29	86	5	85	49	12	16	21	1.79
1351909--1351954	20	2.3	20	76	0	56	10	19	34	34	1.87
1355825--1355859	17	2.1	17	100	0	70	34	20	17	28	1.95
1363951--1363980	15	2.1	15	93	6	53	76	0	16	6	0.99
1373442--1373517	25	3.0	25	81	7	91	28	22	22	26	1.99
1373500--1373567	25	2.7	25	84	4	93	29	23	22	25	1.99
1373442--1373567	50	2.5	50	83	2	137	29	22	23	25	1.99
1373446--1373578	25	5.3	25	73	12	87	30	22	21	25	1.98
1376968--1377324	179	2.0	179	83	2	457	33	15	15	34	1.90
1381381--1381423	21	2.0	21	100	0	86	39	23	9	27	1.85
1382738--1382785	19	2.6	18	80	9	60	27	2	4	66	1.21
1382773--1382810	20	1.9	20	89	10	60	44	0	0	55	0.99
1387925--1387961	15	2.5	15	90	0	56	54	0	10	35	1.36
1390805--1390839	16	2.2	16	89	0	52	65	0	5	28	1.15
1401435--1401985	285	1.9	285	97	0	1048	33	20	17	28	1.96
1411705--1411790	33	2.6	33	74	17	88	46	16	9	27	1.77
1411783--1411822	20	2.0	20	90	0	62	50	12	10	27	1.72
1411771--1411837	34	1.9	35	87	3	100	46	11	8	32	1.72
1412961--1412994	16	2.1	17	88	5	52	52	8	0	38	1.33
1416073--1416102	15	2.0	15	93	0	51	36	0	50	13	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425161--1425204	18	2.4	18	78	14	54	70	4	0	25	1.06
1435071--1435130	18	3.2	18	81	11	68	36	0	6	56	1.26
1435290--1435322	14	2.3	15	89	5	50	36	12	9	42	1.74
1441134--1441172	20	2.1	19	85	9	53	41	5	5	48	1.47
1446629--1446655	2	13.5	2	100	0	54	51	0	0	48	1.00
1452911--1453138	50	4.5	50	81	4	235	30	27	16	25	1.97
1454474--1454573	50	2.0	50	100	0	200	30	16	6	48	1.70
1454483--1454561	25	3.3	23	64	19	61	30	13	6	49	1.67
1458335--1458359	7	3.6	7	100	0	50	28	0	12	60	1.32
1458984--1459018	18	1.9	18	94	0	61	25	31	8	34	1.86
1459436--1459521	43	2.0	45	90	4	140	37	0	12	50	1.41
1459527--1459826	23	12.6	23	75	17	249	45	22	2	30	1.63
1459540--1459852	28	12.8	27	69	24	152	45	22	1	30	1.63
1459539--1459852	71	4.3	71	81	10	327	45	22	1	29	1.63
1459787--1459828	21	2.0	21	90	4	68	45	26	0	28	1.54
1459776--1459886	50	2.2	49	84	9	143	43	26	1	28	1.65
1459841--1459886	20	2.2	22	85	11	62	41	28	2	28	1.68
1459884--1460100	116	1.9	116	94	0	380	39	9	9	41	1.70
1460076--1460117	17	2.4	18	80	4	50	42	9	2	45	1.49
1463003--1463480	126	3.8	125	89	2	683	33	22	15	28	1.94
1465527--1465566	15	2.9	15	89	10	59	27	7	10	55	1.60
1465634--1465798	13	12.5	13	68	10	84	43	3	19	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465660--1465795	40	3.4	40	81	3	159	45	3	17	33	1.66
1469389--1469432	23	1.9	22	82	17	54	38	22	0	38	1.55
1469522--1469639	23	5.1	23	90	0	182	33	23	21	22	1.98
1476742--1476792	19	2.8	19	80	16	63	5	23	1	68	1.22
1479641--1479936	50	6.0	49	84	3	342	26	20	30	22	1.98
1479538--1479934	100	3.9	98	81	7	361	26	19	29	23	1.98
1479598--1479935	150	2.2	149	83	5	401	26	19	29	23	1.98
1485643--1485696	27	2.0	27	82	7	65	68	1	3	25	1.16
1489721--1489821	40	2.5	40	81	0	121	33	23	11	30	1.91
1494212--1494385	30	5.8	30	81	2	188	39	10	24	25	1.88
1494220--1494414	60	3.3	60	85	0	275	40	11	25	23	1.88
1494212--1494385	90	1.9	91	84	3	235	39	10	24	25	1.88
1494246--1494444	30	6.7	30	77	7	145	41	11	24	23	1.87
1494374--1494444	29	2.4	30	88	2	99	46	12	23	16	1.82
1498739--1498771	14	2.4	14	90	5	50	24	12	33	30	1.91
1499040--1499238	79	2.5	79	85	0	245	33	17	26	22	1.96
1502343--1502380	19	2.0	19	85	10	51	15	13	7	63	1.51
1502386--1502457	12	5.5	13	75	15	51	26	8	11	54	1.64
1503637--1503743	54	2.0	54	92	0	178	45	23	20	10	1.81
1506801--1506851	6	8.2	6	77	16	50	21	3	0	74	0.98
1530478--1530977	138	3.6	138	90	2	801	45	6	8	40	1.59
1530881--1530913	17	1.9	17	93	0	57	51	0	6	42	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1530478--1530977	273	1.8	273	91	1	833	45	6	8	40	1.59
1533557--1533624	34	2.0	34	85	5	93	20	25	22	32	1.98
1536293--1536412	22	5.2	22	62	25	59	35	1	3	60	1.23
1536223--1536376	49	3.2	49	73	23	182	31	2	3	62	1.25
1536377--1536438	31	2.0	31	81	12	74	38	0	4	56	1.21
1536211--1536422	94	2.3	94	100	0	424	33	1	3	60	1.25
1543338--1543392	16	3.4	16	92	0	92	40	5	34	20	1.75
1543370--1543466	44	2.2	44	87	5	133	31	4	28	35	1.76
1546790--1546824	14	2.4	14	95	4	61	65	0	25	8	1.21
1546800--1546844	19	2.5	18	82	17	58	66	0	26	6	1.16

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