genome.fa.s94.2.7.7.80.10.50.1000.8.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: Scaffold94
Parameters: 2 7 7 80 10 50 1000
Length:  2274668

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

This is table  8  of  13  ( 1461 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)
1308792--1308817	13	2.0	13	100	0	52	30	15	15	38	1.88
1308772--1308838	33	2.0	33	88	0	98	25	14	16	43	1.86
1311168--1311616	52	8.6	52	72	12	238	29	24	12	34	1.91
1311284--1311358	27	2.7	28	89	2	107	24	34	20	21	1.96
1311388--1311596	52	4.0	53	86	3	260	28	23	11	35	1.91
1311388--1311577	106	1.8	104	84	2	263	26	23	13	36	1.91
1311605--1311674	28	2.6	27	86	6	88	21	37	18	22	1.94
1311551--1311751	106	1.9	106	83	5	262	27	26	15	30	1.96
1311228--1311718	158	3.1	156	72	8	490	28	25	13	32	1.94
1311628--1311909	79	3.6	78	83	4	309	25	27	16	30	1.96
1319574--1319689	51	2.3	51	84	0	142	28	13	27	30	1.94
1319625--1319828	79	2.6	79	87	0	291	33	14	25	26	1.94
1319449--1319768	130	2.4	131	81	6	364	33	14	24	27	1.94
1319783--1320224	51	8.5	51	74	12	337	33	12	25	28	1.92
1319597--1320210	260	2.4	254	83	5	712	32	13	25	27	1.93
1325146--1325170	13	1.9	13	100	0	50	36	16	16	32	1.90
1325123--1325190	33	2.1	33	88	2	102	32	14	17	35	1.91
1333323--1333347	13	1.9	13	100	0	50	36	16	16	32	1.90
1333300--1333367	33	2.1	33	88	2	102	32	14	17	35	1.91
1333421--1333484	33	1.9	33	90	0	101	34	18	18	28	1.95
1341568--1341814	80	3.1	79	76	8	223	28	27	10	34	1.90
1343741--1343881	67	2.1	65	83	7	183	39	7	19	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1343872--1344065	91	2.1	92	81	6	216	42	7	18	31	1.78
1348829--1348896	20	3.3	20	68	11	57	57	2	1	38	1.23
1348757--1350758	73	27.5	71	79	8	1759	53	13	2	30	1.51
1349575--1349620	22	2.1	22	84	8	58	65	4	0	30	1.12
1351112--1351247	66	2.1	63	87	4	191	44	2	2	50	1.29
1352227--1352264	5	7.8	5	83	16	53	39	2	0	57	1.12
1352219--1352264	19	2.5	20	89	10	64	41	2	0	56	1.11
1352220--1352264	24	2.0	22	91	8	72	40	2	0	57	1.11
1353808--1353925	60	2.0	60	94	0	209	28	23	12	34	1.92
1356996--1357029	3	11.3	3	100	0	68	67	0	32	0	0.91
1358477--1358513	18	2.1	18	94	0	65	45	0	2	51	1.15
1358653--1358696	16	2.7	17	79	10	56	59	22	0	18	1.38
1362890--1362928	2	19.5	2	100	0	78	48	0	0	51	1.00
1363796--1364016	34	6.5	33	82	9	266	40	26	7	24	1.82
1363798--1364016	68	3.2	67	85	3	296	40	26	7	25	1.82
1363796--1364016	102	2.2	101	89	1	352	40	26	7	24	1.82
1368420--1368638	34	6.5	33	81	9	244	41	25	7	25	1.82
1368422--1368638	68	3.2	69	84	4	291	41	25	7	25	1.82
1368423--1368638	102	2.1	101	88	2	317	41	25	7	25	1.82
1377996--1378033	21	1.9	19	85	15	51	57	0	0	42	0.98
1379720--1379808	32	2.7	34	83	15	107	31	0	0	68	0.90
1379731--1379793	24	2.5	25	73	14	58	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379723--1379808	35	2.6	31	81	17	86	31	0	0	68	0.90
1380134--1380189	8	6.8	8	76	15	60	80	0	17	1	0.80
1380131--1380188	23	2.7	21	86	10	73	79	0	18	1	0.82
1380810--1380850	21	2.0	21	85	9	57	39	12	9	39	1.76
1380933--1381067	53	2.5	53	92	1	216	38	18	17	25	1.92
1381091--1381121	10	3.1	10	90	0	53	22	29	6	41	1.78
1381109--1381162	21	2.5	22	93	6	101	25	25	11	37	1.89
1382613--1382672	27	2.1	29	84	6	79	45	0	0	55	0.99
1382882--1382942	9	6.9	9	75	7	54	32	0	0	67	0.91
1382883--1382942	11	5.3	11	74	18	52	33	0	0	66	0.92
1383065--1383110	24	2.0	23	86	4	65	32	2	2	63	1.19
1389524--1389565	16	2.5	17	85	14	61	28	0	0	71	0.86
1389653--1389692	21	1.9	21	84	0	53	65	2	0	32	1.06
1389664--1389707	20	2.1	21	84	12	56	61	2	0	36	1.09
1390118--1390160	2	21.0	2	95	4	77	48	0	2	48	1.14
1391518--1392258	313	2.3	315	80	6	822	40	12	14	32	1.84
1391727--1392414	294	2.3	303	80	8	740	43	9	14	32	1.78
1392562--1392592	2	15.5	2	100	0	62	48	0	0	51	1.00
1394529--1394607	38	2.1	38	97	0	149	46	16	10	26	1.78
1395688--1395775	32	2.8	32	83	0	122	46	7	5	39	1.57
1395882--1395922	20	2.2	19	84	16	59	46	0	0	53	1.00
1397211--1397554	170	2.0	172	90	2	541	43	7	5	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397607--1397643	2	18.5	2	100	0	74	48	0	0	51	1.00
1398435--1398466	16	2.0	16	93	0	55	40	9	12	37	1.75
1398526--1398583	21	2.8	20	81	7	53	41	0	0	58	0.98
1400212--1400241	2	15.0	2	100	0	60	50	0	0	50	1.00
1400399--1400456	20	2.9	19	76	18	55	36	0	3	60	1.14
1400397--1400454	23	2.4	23	91	5	89	36	0	3	60	1.14
1400910--1400963	23	2.2	26	83	9	69	50	0	0	50	1.00
1401155--1401269	16	6.8	16	69	26	53	42	0	0	57	0.98
1401201--1401238	19	2.0	19	85	10	51	44	0	0	55	0.99
1401526--1401557	2	16.0	2	100	0	64	50	0	50	0	1.00
1418087--1418173	6	14.5	6	96	0	120	50	20	0	28	1.48
1418177--1418217	2	20.5	2	100	0	82	51	0	48	0	1.00
1419586--1419614	2	14.5	2	100	0	58	0	51	0	48	1.00
1420378--1420408	10	3.1	10	90	0	53	58	12	6	22	1.58
1421291--1421406	59	2.0	59	96	0	214	28	19	18	33	1.95
1427230--1427376	31	4.9	29	71	15	111	36	17	0	46	1.53
1427324--1427394	31	2.4	28	81	11	88	38	18	0	43	1.50
1430552--1430581	3	10.0	3	100	0	60	66	0	0	33	0.92
1431113--1431163	19	2.9	18	88	8	70	62	1	1	33	1.17
1431779--1431817	13	3.0	13	92	7	62	84	0	15	0	0.62
1431774--1431817	17	2.5	17	86	13	63	81	0	18	0	0.68
1435183--1435239	13	3.9	13	76	24	60	35	14	17	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435158--1435260	32	3.1	33	91	5	147	33	11	18	36	1.87
1435196--1435258	19	3.7	18	76	24	73	33	12	17	36	1.88
1435179--1435260	32	2.6	32	98	0	155	32	12	18	36	1.88
1435301--1435326	13	2.0	13	100	0	52	30	15	15	38	1.88
1435314--1435435	52	2.3	52	95	0	226	35	18	18	27	1.95
1435439--1435502	18	3.3	18	69	23	58	18	17	15	48	1.81
1435432--1435513	40	2.0	40	100	0	164	18	18	17	46	1.85
1443980--1444054	22	3.6	19	70	18	60	70	8	12	9	1.33
1443995--1444053	22	2.7	23	80	15	63	71	6	11	10	1.31
1443984--1444077	44	2.2	43	81	12	104	70	9	11	8	1.35
1445319--1445464	28	5.2	28	84	6	179	22	30	15	30	1.95
1445327--1445708	83	4.7	82	77	12	380	23	31	14	30	1.94
1445477--1445708	27	8.4	27	78	8	227	22	30	15	31	1.95
1445421--1445507	44	2.0	44	86	2	122	20	35	16	27	1.94
1445465--1445663	110	1.8	110	87	4	303	23	31	14	31	1.94
1445465--1445708	110	2.2	110	83	2	294	23	31	14	31	1.94
1445477--1445712	28	8.6	28	77	8	216	23	30	15	31	1.95
1445465--1445729	28	9.6	28	75	9	179	24	29	15	30	1.95
1445603--1446185	28	20.2	28	78	7	490	30	29	15	24	1.96
1445718--1446185	116	4.0	115	82	7	491	31	29	15	23	1.96
1445640--1446185	145	3.8	144	82	6	595	30	29	15	24	1.96
1446329--1446450	48	2.5	48	91	0	199	21	28	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450629--1450677	25	2.0	25	87	0	71	42	6	30	20	1.76
1453427--1453487	9	6.0	9	74	22	50	80	3	14	1	0.92
1453427--1453487	21	2.9	19	75	15	59	80	3	14	1	0.92
1453431--1453487	11	5.2	11	74	6	53	80	3	14	1	0.92
1457810--1457837	2	14.0	2	100	0	56	0	0	50	50	1.00
1467481--1467545	32	2.0	32	100	0	130	27	16	24	30	1.97
1468416--1468464	14	3.4	15	78	21	52	75	0	22	2	0.90
1468817--1468851	2	17.5	2	87	0	52	42	0	5	51	1.25
1468817--1468851	16	2.2	16	100	0	70	42	0	5	51	1.25
1474854--1474896	22	2.0	22	85	0	59	69	11	13	4	1.33

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