genome.fa.s66.2.7.7.80.10.50.1000.8.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  8  of  26  ( 3105 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)
1385780--1385843	29	2.2	29	85	2	83	57	6	0	35	1.24
1386475--1386501	4	6.8	4	100	0	54	51	0	0	48	1.00
1386892--1387015	5	25.8	5	68	16	66	42	0	1	55	1.09
1386892--1386967	27	2.7	27	77	20	68	43	0	2	53	1.14
1386925--1387012	34	2.6	34	82	7	90	43	0	0	56	0.99
1387605--1387641	18	2.1	18	94	0	65	24	24	24	27	2.00
1388946--1389007	19	3.2	19	72	2	61	46	1	0	51	1.10
1388941--1388972	15	2.0	17	88	11	50	53	0	0	46	1.00
1389006--1389051	12	3.8	12	78	21	51	67	0	2	30	1.03
1390170--1390200	16	2.0	16	93	6	55	45	0	0	54	0.99
1390197--1390247	15	3.5	15	78	13	52	45	0	0	54	0.99
1390250--1390283	17	2.0	17	88	11	52	58	2	0	38	1.13
1390944--1391002	15	4.2	14	81	12	68	59	0	3	37	1.14
1391070--1391122	28	1.9	27	84	3	70	62	1	1	33	1.17
1391631--1391714	30	2.8	30	90	1	134	54	1	0	44	1.07
1392132--1392218	18	4.7	19	79	13	92	54	0	1	44	1.07
1392205--1392254	15	3.3	15	71	23	50	56	2	0	42	1.11
1392346--1392389	18	2.4	19	88	3	63	29	2	0	68	1.02
1393299--1393326	2	14.0	2	100	0	56	50	0	0	50	1.00
1393973--1394016	18	2.4	18	84	3	52	56	0	0	43	0.99
1395394--1395435	14	3.1	14	86	6	59	54	0	0	45	0.99
1395889--1395928	15	2.6	15	88	4	53	50	2	0	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396532--1396578	17	2.8	17	86	0	58	53	0	0	46	1.00
1396537--1396582	22	2.0	24	87	8	69	54	0	0	45	0.99
1397405--1397438	15	2.3	15	89	0	50	58	0	11	29	1.33
1397584--1397628	15	2.9	15	83	3	54	48	0	0	51	1.00
1397584--1397626	16	2.9	15	86	6	52	48	0	0	51	1.00
1398417--1398564	64	2.3	64	92	1	262	39	8	7	44	1.62
1398440--1398548	30	3.5	30	68	20	89	39	10	10	40	1.73
1398645--1398672	11	2.5	11	100	0	56	71	0	0	28	0.86
1398825--1398853	2	14.5	2	100	0	58	51	0	0	48	1.00
1399248--1399291	6	6.8	6	80	14	52	52	0	0	47	1.00
1399248--1399291	13	3.4	13	87	9	63	52	0	0	47	1.00
1399248--1399291	20	2.2	20	84	4	63	52	0	0	47	1.00
1399258--1399291	7	5.0	7	85	7	52	52	0	0	47	1.00
1399728--1399827	23	4.0	25	73	18	82	58	0	0	42	0.98
1399848--1399877	15	2.0	15	93	0	51	50	0	0	50	1.00
1400825--1400866	14	3.1	14	79	6	50	35	0	2	61	1.09
1401057--1401124	25	2.6	28	78	21	76	45	0	0	54	0.99
1401068--1401132	14	4.6	14	76	19	55	46	0	0	53	1.00
1401055--1401125	20	3.7	18	70	15	54	45	0	0	54	0.99
1407104--1407143	19	2.0	20	85	4	55	42	0	0	57	0.98
1407200--1407536	170	2.0	166	89	2	514	56	9	2	31	1.46
1407396--1407429	17	2.0	17	88	0	50	67	0	2	29	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1408456--1408501	24	1.9	24	83	16	60	30	4	2	63	1.26
1409657--1409686	14	2.2	14	94	5	53	56	0	0	43	0.99
1410186--1410228	13	3.0	14	80	12	52	46	0	2	51	1.13
1410190--1410228	15	2.7	14	85	14	53	48	0	2	48	1.15
1410735--1410798	24	2.6	26	80	9	73	48	0	6	45	1.27
1412312--1412366	27	2.0	28	82	7	67	50	3	3	41	1.37
1412487--1412560	34	2.2	34	100	0	148	35	14	8	41	1.76
1412995--1413064	25	2.7	25	75	4	68	47	2	0	50	1.16
1412987--1413067	25	3.2	25	68	13	67	45	3	0	50	1.19
1413302--1413338	2	18.5	2	100	0	74	48	0	0	51	1.00
1415350--1415408	24	2.4	26	78	18	72	28	3	1	66	1.18
1415501--1415587	36	2.4	36	80	7	86	43	9	4	42	1.57
1415853--1415942	21	4.4	21	74	22	70	48	0	0	51	1.00
1415837--1415983	41	3.6	41	71	23	114	48	0	0	49	1.10
1416105--1416139	2	17.5	2	100	0	70	48	0	0	51	1.00
1416478--1416529	22	2.2	22	83	10	59	57	0	1	40	1.10
1420212--1420343	67	2.0	67	93	0	228	44	12	14	28	1.81
1420656--1420730	39	1.9	39	86	10	109	38	8	16	37	1.78
1421969--1422019	21	2.4	21	83	0	66	62	1	0	35	1.06
1429049--1429078	3	10.0	3	100	0	60	66	0	0	33	0.92
1430209--1430260	20	2.6	21	75	25	58	61	0	3	34	1.14
1430849--1430887	18	2.2	18	86	13	55	38	0	5	56	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430849--1430908	16	3.6	16	77	11	50	43	0	3	53	1.17
1430863--1430908	16	2.8	17	77	12	51	43	0	2	54	1.12
1430883--1430943	22	2.7	23	75	10	63	44	0	1	54	1.10
1430898--1430939	15	2.8	16	78	10	52	40	0	2	57	1.12
1431067--1431110	23	1.9	23	86	9	63	6	25	27	40	1.80
1431198--1431233	3	12.0	3	93	0	63	33	63	0	2	1.08
1431335--1431521	48	3.9	48	91	0	275	25	51	12	10	1.71
1431361--1431518	24	6.6	23	73	7	100	26	51	12	10	1.70
1431335--1431551	48	4.5	48	89	1	265	25	50	11	11	1.73
1436254--1436312	20	3.0	20	72	5	57	38	0	3	57	1.15
1436901--1436925	6	4.2	6	100	0	50	32	0	36	32	1.58
1437121--1437147	14	1.9	14	100	0	54	11	0	7	81	0.87
1438143--1438196	9	5.6	10	78	17	53	64	0	0	35	0.94
1438201--1438230	13	2.3	13	94	0	51	46	6	0	46	1.29
1438736--1438773	5	7.6	5	100	0	76	42	0	0	57	0.98
1439005--1439037	2	16.5	2	93	0	57	54	0	45	0	0.99
1446798--1446835	15	2.5	15	87	8	51	60	0	10	28	1.30
1448832--1448882	24	2.1	25	89	10	79	54	0	0	45	0.99
1449096--1449120	7	3.6	7	100	0	50	32	68	0	0	0.90
1449542--1449572	15	2.0	16	93	6	55	61	0	0	38	0.96
1456728--1456774	23	2.0	23	95	0	85	31	12	10	44	1.77
1460151--1460185	18	1.9	18	88	0	52	28	11	60	0	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1460420--1460484	11	5.6	12	74	18	50	61	0	0	38	0.96
1460430--1460512	22	4.0	21	71	23	77	62	1	1	34	1.11
1460420--1460734	29	10.9	29	77	14	260	58	0	2	37	1.18
1460429--1460730	20	16.6	19	63	26	81	58	0	2	37	1.19
1460576--1460668	34	2.8	33	76	19	88	58	0	1	40	1.05
1460579--1460673	16	5.8	16	70	14	61	56	0	1	42	1.06
1460690--1460727	19	2.0	19	85	10	51	71	0	0	28	0.87
1461208--1461244	18	2.0	20	89	10	60	43	0	0	56	0.99
1462503--1462542	20	2.0	20	100	0	80	10	40	15	35	1.80
1466111--1466148	5	7.8	5	83	16	53	63	0	0	36	0.95
1466111--1466148	11	3.9	10	87	12	53	63	0	0	36	0.95
1466111--1466159	16	3.2	16	77	19	59	63	0	0	36	0.95
1466204--1466262	26	2.2	27	84	6	75	45	1	0	52	1.10
1466965--1467031	26	2.6	26	71	19	68	44	0	1	53	1.09
1467520--1467568	19	2.5	20	83	9	66	48	0	0	51	1.00
1467520--1467569	9	5.3	9	79	9	55	48	0	0	52	1.00
1469147--1469186	2	20.0	2	89	0	62	47	2	2	47	1.29
1469437--1469477	6	6.5	6	86	8	55	21	2	0	75	0.92
1469906--1469961	28	2.0	28	85	3	76	50	1	0	48	1.11
1470011--1470061	19	2.7	19	82	11	61	43	1	1	52	1.23
1470133--1470181	6	8.2	6	88	0	53	59	4	0	36	1.17
1470125--1470179	28	2.0	27	82	6	67	60	7	0	32	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1470734--1470769	18	2.1	17	89	5	54	69	5	0	25	1.10
1471562--1471596	12	3.0	11	88	12	52	22	0	0	77	0.78
1472254--1472315	18	3.5	17	77	20	65	58	0	0	41	0.98
1472252--1472327	35	2.2	35	86	9	102	59	0	0	40	0.98
1472248--1472329	10	8.9	10	72	20	72	59	0	0	40	0.97
1472241--1472327	27	3.3	26	73	10	79	62	0	0	37	0.96
1476942--1477002	23	3.0	22	77	15	60	55	0	3	40	1.16
1476981--1477028	17	2.8	16	84	15	60	60	0	2	37	1.09
1477686--1477714	13	2.2	13	100	0	58	20	0	0	79	0.74
1478014--1478044	15	2.0	16	93	6	55	38	0	0	61	0.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26