genome.fa.s132.2.7.7.80.10.50.1000.8.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: 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  8  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)
1341431--1341477	22	2.2	22	88	11	71	57	0	0	42	0.98
1341432--1341506	22	3.3	22	75	17	66	57	1	0	41	1.07
1341979--1342060	30	2.8	30	83	7	98	41	0	7	51	1.30
1341990--1342040	2	25.5	2	79	15	52	43	0	3	52	1.19
1342301--1342373	35	2.0	37	89	10	116	52	0	0	47	1.00
1342327--1342394	27	2.5	27	75	17	70	52	0	0	47	1.00
1342814--1342879	26	2.7	25	79	9	73	57	0	0	42	0.98
1343156--1343191	12	2.9	12	87	4	54	61	0	2	36	1.11
1343325--1343358	17	2.0	17	88	0	50	52	0	0	47	1.00
1344841--1344901	24	2.4	26	81	8	72	37	0	3	59	1.14
1345822--1345856	2	17.5	2	100	0	70	48	0	0	51	1.00
1346886--1346914	12	2.4	12	100	0	58	75	0	0	24	0.80
1347510--1347565	29	1.9	29	88	0	85	41	3	7	48	1.48
1348358--1348395	18	2.1	19	90	9	62	47	0	0	52	1.00
1348389--1348449	30	2.0	30	84	6	79	47	0	0	52	1.00
1348417--1348465	25	2.0	25	83	0	62	44	0	0	55	0.99
1348390--1348472	36	2.3	37	80	14	93	48	0	0	51	1.00
1348883--1348940	31	1.9	30	86	10	82	51	6	6	34	1.55
1355131--1355175	2	23.5	2	86	8	67	46	0	2	51	1.13
1355290--1355345	23	2.4	25	82	8	64	46	0	0	53	1.00
1355654--1355685	15	2.1	15	100	0	64	50	6	37	6	1.53
1355748--1355781	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357872--1357904	10	3.4	10	87	8	50	60	0	0	39	0.97
1358983--1359010	2	14.0	2	100	0	56	50	0	0	50	1.00
1360163--1360190	11	2.5	11	100	0	56	53	17	0	28	1.44
1362139--1362196	21	2.7	20	84	12	71	37	0	0	62	0.96
1362205--1362250	10	4.8	9	87	12	65	50	0	4	45	1.21
1362205--1362250	5	9.4	5	77	13	51	50	0	4	45	1.21
1363379--1363486	32	3.4	32	74	8	105	23	9	13	53	1.68
1367562--1368297	369	2.0	368	96	1	1350	36	17	16	30	1.92
1377450--1377492	17	2.5	17	81	11	52	53	0	0	46	1.00
1377470--1377531	30	2.0	30	81	9	72	43	0	0	56	0.99
1377496--1377549	19	2.9	19	80	2	65	42	0	0	57	0.98
1378794--1378859	16	4.1	16	75	14	64	39	0	0	60	0.97
1379018--1379058	15	2.7	15	100	0	82	87	0	12	0	0.53
1380043--1380105	27	2.3	27	89	5	92	84	0	15	0	0.63
1380043--1380105	8	7.1	8	78	19	63	84	0	15	0	0.63
1380046--1380104	19	3.2	19	88	11	95	84	0	15	0	0.62
1380919--1380969	13	3.6	13	75	25	50	41	1	0	56	1.10
1380986--1381068	23	3.4	23	75	17	62	32	3	1	62	1.20
1381008--1381074	34	1.9	35	85	8	93	34	1	0	64	1.03
1381008--1381068	23	2.7	24	85	12	76	34	1	0	63	1.04
1381034--1381088	22	2.5	22	82	8	58	34	1	0	63	1.05
1381067--1381170	16	7.2	13	71	23	50	40	0	0	58	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1381080--1381172	14	6.4	15	73	16	72	40	1	0	58	1.05
1381673--1381709	19	2.0	18	89	5	56	40	2	0	56	1.13
1381668--1381733	26	2.7	24	78	19	73	40	3	0	56	1.15
1382650--1382690	21	1.9	22	90	5	66	51	0	0	48	1.00
1382627--1382683	19	3.0	18	77	10	60	49	0	0	50	1.00
1383363--1383412	13	3.9	13	75	19	52	50	0	4	46	1.20
1383361--1383428	28	2.4	27	76	16	68	48	0	5	45	1.26
1383524--1383584	5	12.2	5	84	6	70	54	21	18	6	1.66
1383524--1383578	25	2.2	25	90	0	83	52	21	18	7	1.69
1383627--1383730	53	2.0	53	92	0	172	20	15	25	39	1.91
1384306--1384352	24	2.0	24	100	0	94	12	29	14	42	1.83
1386077--1386152	33	2.3	32	84	4	89	38	5	6	50	1.51
1386201--1386248	21	2.2	22	82	14	64	35	2	0	62	1.07
1385727--1386423	350	2.0	348	84	3	900	40	8	6	45	1.59
1386420--1386463	15	2.8	16	78	21	56	50	0	2	47	1.13
1386404--1386512	54	2.1	52	86	6	148	55	0	2	42	1.14
1386965--1387048	2	42.5	2	89	7	127	48	2	1	47	1.22
1387414--1387444	2	15.5	2	100	0	62	51	0	0	48	1.00
1388275--1388305	2	15.5	2	93	0	53	51	3	0	45	1.17
1391122--1391155	2	17.0	2	100	0	68	50	0	0	50	1.00
1395846--1395874	2	14.5	2	100	0	58	51	0	0	48	1.00
1396117--1396178	15	4.3	15	71	8	56	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396481--1396547	29	2.3	29	80	17	77	68	0	0	31	0.90
1396563--1396588	2	13.0	2	100	0	52	50	0	0	50	1.00
1400560--1400593	2	17.0	2	100	0	68	50	0	0	50	1.00
1400736--1400780	18	2.5	18	81	0	54	44	2	0	53	1.13
1404167--1404207	14	2.9	14	92	0	64	0	12	0	87	0.53
1404167--1404207	19	2.1	20	86	13	59	0	12	0	87	0.53
1405514--1405639	9	13.1	9	69	20	53	62	0	2	34	1.08
1405599--1405649	22	2.3	22	86	6	68	60	1	0	37	1.08
1406093--1406187	38	2.4	38	82	5	100	43	4	1	51	1.28
1406479--1406538	11	5.4	11	75	18	52	65	0	0	35	0.93
1406470--1406538	25	2.8	26	77	20	76	63	0	0	36	0.94
1406483--1406559	18	4.3	19	74	22	62	62	1	0	36	1.04
1407435--1407491	29	1.9	30	82	7	71	54	0	0	45	0.99
1411616--1411655	2	20.0	2	100	0	80	50	0	0	50	1.00
1415571--1415664	11	8.5	11	69	18	52	67	1	2	29	1.10
1415568--1415622	19	3.0	17	75	17	56	74	1	0	23	0.91
1415578--1415617	19	2.1	19	90	4	62	80	2	0	17	0.83
1415560--1415619	12	4.8	12	76	15	59	75	1	0	23	0.90
1415611--1415656	18	2.6	18	86	10	67	60	0	4	34	1.16
1415613--1415656	19	2.4	19	84	3	63	59	0	4	36	1.18
1416168--1416210	11	3.6	12	84	9	61	58	0	0	41	0.98
1416753--1416852	17	5.6	17	75	16	87	66	3	1	30	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416781--1416850	20	3.7	19	83	14	92	67	0	1	31	1.00
1416753--1416853	37	2.8	36	82	8	116	65	2	0	30	1.14
1419921--1419949	3	9.7	3	100	0	58	65	0	0	34	0.93
1421808--1421851	17	2.6	17	77	0	52	15	4	0	79	0.89
1422185--1422214	2	15.0	2	100	0	60	0	50	0	50	1.00
1422535--1422574	18	2.2	19	86	4	55	65	0	0	35	0.93
1423499--1423566	29	2.3	30	82	7	77	42	5	10	41	1.63
1423524--1423581	30	1.9	30	86	6	82	44	3	8	43	1.51
1424548--1424611	28	2.3	27	82	12	76	54	4	0	40	1.21
1424628--1424686	29	1.9	31	90	10	95	67	16	3	11	1.34
1425813--1425850	12	2.9	13	84	11	51	42	0	0	57	0.98
1426797--1426863	35	1.9	35	81	6	82	55	1	1	41	1.18
1427410--1427514	25	4.1	25	68	17	65	50	0	1	47	1.12
1427410--1427510	13	8.4	12	69	15	57	49	0	1	48	1.12
1431309--1431392	20	4.2	20	73	15	77	42	2	0	54	1.13
1431308--1431388	40	2.0	40	81	11	94	44	2	0	53	1.14
1431894--1431928	3	11.7	3	93	0	61	28	0	0	71	0.86
1432485--1432515	2	16.0	2	93	6	55	51	0	0	48	1.00
1432669--1432700	2	16.0	2	93	0	55	50	3	0	46	1.17
1432890--1432918	13	2.3	13	94	5	51	55	0	0	44	0.99
1434979--1435019	20	2.0	20	85	0	55	41	2	0	56	1.13
1435357--1435403	24	2.0	24	86	0	67	51	17	0	31	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1436556--1436589	2	17.0	2	93	0	59	47	0	2	50	1.16
1441335--1441436	5	21.2	5	72	18	74	57	0	0	41	1.05
1441335--1441401	17	3.8	17	77	14	73	62	0	0	37	0.95
1441355--1441401	19	2.4	19	92	3	76	65	0	0	34	0.93
1441398--1441478	24	3.3	25	77	14	71	41	0	1	56	1.07
1445463--1445629	89	1.9	89	92	2	282	53	11	21	13	1.71
1448688--1448715	2	14.0	2	100	0	56	50	0	0	50	1.00
1450703--1450766	27	2.3	28	84	12	80	39	3	3	54	1.32
1450949--1450989	22	1.9	21	85	5	55	56	0	0	43	0.99
1451340--1451399	2	30.5	2	75	21	56	46	1	5	46	1.34

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