genome.fa.s293.2.7.7.80.10.50.1000.10.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: Scaffold293
Parameters: 2 7 7 80 10 50 1000
Length:  1704560

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

This is table  10  of  12  ( 1341 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)
1383054--1383092	17	2.2	18	86	4	53	56	0	0	43	0.99
1384397--1384435	16	2.6	15	84	11	53	28	5	7	58	1.47
1384802--1384886	30	2.8	29	81	11	93	51	2	0	45	1.13
1386590--1386631	3	13.7	3	95	5	75	0	33	0	66	0.92
1391586--1391611	2	13.0	2	100	0	52	50	0	0	50	1.00
1394056--1394080	2	12.5	2	100	0	50	0	48	0	52	1.00
1394080--1394112	2	16.5	2	100	0	66	48	0	0	51	1.00
1396133--1396195	27	2.3	26	83	10	72	44	0	3	52	1.17
1396177--1396206	13	2.2	14	94	5	53	40	0	0	60	0.97
1396558--1396587	2	15.0	2	100	0	60	50	0	0	50	1.00
1398093--1398139	20	2.3	20	96	3	85	38	0	8	53	1.32
1399942--1399997	27	2.1	27	83	6	69	66	3	5	25	1.29
1400454--1400481	11	2.5	11	100	0	56	89	0	10	0	0.49
1401334--1401368	2	18.0	2	88	5	54	48	2	0	48	1.16
1402539--1402584	20	2.3	20	78	10	51	65	0	0	34	0.93
1405630--1405667	13	2.6	16	80	20	55	57	0	0	42	0.98
1405872--1405946	11	6.5	11	73	18	64	34	1	0	64	1.02
1405860--1405921	26	2.4	26	86	5	81	33	3	1	61	1.22
1405872--1405941	6	11.8	6	72	24	60	34	1	0	64	1.03
1405882--1405940	8	7.4	8	78	21	70	33	1	0	64	1.04
1405873--1405929	26	2.2	26	96	0	105	33	1	0	64	1.04
1406953--1407003	26	1.9	27	88	4	77	21	0	3	74	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1406994--1407143	69	2.2	69	87	2	214	44	4	5	46	1.45
1407476--1407550	22	3.3	22	72	18	64	44	0	0	56	0.99
1408129--1408186	26	2.1	28	84	9	75	44	1	0	53	1.10
1409295--1409330	2	18.0	2	100	0	72	50	0	0	50	1.00
1409600--1409629	15	2.1	15	93	6	53	36	0	6	56	1.26
1410861--1410906	21	2.1	21	88	4	65	60	6	2	30	1.34
1411195--1411247	26	2.2	22	78	15	52	41	0	1	56	1.10
1411457--1411512	24	2.4	25	76	11	64	58	0	0	41	0.98
1411446--1411522	31	2.4	30	85	10	100	55	0	1	42	1.07
1412182--1412235	26	2.2	26	83	6	67	48	11	0	40	1.39
1412328--1412403	34	2.3	33	81	6	82	48	1	1	48	1.18
1413306--1413371	2	32.5	2	83	8	71	50	4	3	42	1.38
1413725--1413773	25	1.9	26	88	12	75	40	0	2	57	1.10
1420980--1421044	12	5.8	12	74	17	59	69	1	27	1	1.07
1421000--1421091	14	6.2	14	70	16	53	71	1	26	1	0.99
1434752--1434786	2	17.5	2	100	0	70	0	48	0	51	1.00
1434786--1434820	2	17.5	2	93	0	61	45	0	2	51	1.16
1434823--1434863	2	20.5	2	100	0	82	51	48	0	0	1.00
1436624--1436659	4	9.0	4	93	0	63	47	25	2	25	1.65
1436864--1436896	15	2.1	16	88	5	50	39	12	0	48	1.40
1441037--1441094	16	3.5	17	81	13	68	36	0	1	62	1.06
1441123--1441197	16	4.4	16	68	22	55	54	0	1	44	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441076--1441139	31	2.1	32	82	11	80	46	0	3	50	1.17
1441199--1441298	6	16.8	6	73	13	64	37	1	2	60	1.15
1441211--1441307	45	2.1	49	84	7	130	35	1	3	60	1.19
1443634--1444516	220	4.0	220	96	1	1597	50	17	14	17	1.78
1443634--1444516	442	2.0	441	96	1	1635	50	17	14	17	1.78
1445063--1445094	15	2.2	14	94	5	55	37	0	0	62	0.95
1445130--1445164	16	2.2	16	89	0	52	54	0	0	45	0.99
1445145--1445194	25	2.0	24	85	11	66	48	0	0	52	1.00
1445310--1445366	13	4.5	13	76	10	55	47	0	0	52	1.00
1445344--1445381	17	2.1	18	85	9	51	57	0	0	42	0.98
1446796--1446851	23	2.4	23	82	5	60	51	0	5	42	1.24
1446966--1446991	13	2.0	13	100	0	52	61	0	0	38	0.96
1449103--1449146	22	2.0	22	100	0	88	22	4	27	45	1.72
1452722--1452761	2	20.0	2	100	0	80	50	0	0	50	1.00
1459258--1459315	29	2.0	29	96	0	107	43	3	15	37	1.64
1462103--1462157	26	2.1	27	89	3	85	29	25	12	32	1.93
1462107--1462162	27	2.1	27	96	3	105	28	26	10	33	1.90
1467231--1467329	47	2.1	47	80	15	109	32	4	1	62	1.20
1468013--1468040	2	14.0	2	100	0	56	50	0	0	50	1.00
1468098--1468164	24	3.2	20	77	12	57	37	1	0	61	1.05
1468118--1468164	12	3.8	12	83	11	51	38	2	0	59	1.09
1469161--1469193	7	4.4	8	88	11	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1469635--1469665	3	10.3	3	100	0	62	35	0	0	64	0.94
1469802--1469864	26	2.4	25	79	10	63	52	6	3	38	1.43
1470308--1470359	19	2.8	19	82	2	52	48	0	1	50	1.12
1470370--1470419	18	2.7	18	78	9	64	56	0	0	44	0.99
1478697--1478727	13	2.4	13	100	0	62	32	0	0	67	0.91
1479392--1479452	24	2.6	24	80	16	74	62	0	0	37	0.96
1479574--1479613	6	6.5	6	85	5	53	62	0	0	37	0.95
1479554--1479623	25	2.8	25	71	0	68	55	0	0	44	0.99
1484214--1484239	12	2.2	12	100	0	52	42	0	0	57	0.98
1484342--1484387	23	1.9	24	82	8	58	30	4	21	43	1.72
1492568--1492626	30	1.9	31	93	3	102	69	5	3	22	1.23
1493033--1493057	2	12.5	2	100	0	50	52	0	0	48	1.00
1496757--1496794	16	2.4	17	86	8	53	31	0	0	68	0.90
1500713--1500741	3	9.7	3	100	0	58	31	0	0	68	0.89
1502361--1502392	9	3.6	9	91	0	55	15	53	9	21	1.70
1504649--1504708	14	4.1	15	71	18	54	58	0	1	40	1.08
1507596--1507620	13	1.9	13	100	0	50	56	8	4	32	1.47
1509500--1509552	2	26.5	2	100	0	106	49	0	0	50	1.00
1513077--1513123	22	2.1	22	84	7	60	44	6	4	44	1.49
1513626--1513666	2	20.5	2	94	0	73	48	2	0	48	1.14
1513762--1513787	2	13.0	2	100	0	52	50	0	0	50	1.00
1514834--1514892	28	2.1	28	84	12	77	61	8	3	27	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1515639--1515679	22	1.9	21	85	14	57	39	0	0	60	0.96
1518278--1518305	3	9.3	3	100	0	56	0	35	0	64	0.94
1519713--1519751	3	13.0	3	100	0	78	66	0	0	33	0.92
1520215--1520239	2	12.5	2	100	0	50	48	0	0	52	1.00
1520776--1521063	147	1.9	148	82	8	354	38	7	11	42	1.70
1521565--1521606	2	21.0	2	95	0	75	47	0	52	0	1.00
1522395--1522436	2	20.5	2	95	4	75	47	0	2	50	1.14
1522473--1522546	18	4.2	18	77	5	80	43	1	2	52	1.23
1522457--1522530	36	2.1	36	87	2	105	41	4	4	50	1.40
1522517--1522547	16	1.9	16	100	0	62	45	0	0	54	0.99
1523356--1523400	22	2.0	23	86	4	65	22	6	15	55	1.63
1526961--1527006	16	2.9	16	86	0	56	45	0	4	50	1.21
1527579--1527641	22	2.9	21	76	9	56	42	3	0	53	1.16
1527580--1527633	22	2.4	23	81	6	65	40	3	0	55	1.17
1528327--1528369	21	2.0	23	86	9	63	44	0	2	53	1.13
1528417--1528463	21	2.3	20	82	7	58	42	2	0	55	1.12
1528417--1528470	21	2.7	21	78	13	53	42	1	0	55	1.10
1528944--1529013	27	2.6	27	78	10	72	35	7	7	50	1.57
1533450--1533525	27	2.9	26	74	3	80	28	5	18	47	1.70
1533450--1533522	26	2.8	26	79	8	69	30	5	16	47	1.69
1535722--1535787	5	12.6	5	78	9	60	69	0	1	28	0.97
1535720--1535785	16	4.1	16	72	14	64	68	0	1	30	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1537274--1537348	27	2.9	24	70	16	60	41	0	4	54	1.19
1537274--1537349	26	2.9	26	74	14	75	42	0	3	53	1.19
1537378--1537423	19	2.4	19	82	7	58	58	0	0	41	0.98
1537682--1537711	3	10.0	3	100	0	60	66	0	0	33	0.92
1538501--1538564	27	2.3	27	77	17	69	32	0	0	67	0.91
1538506--1538561	20	2.8	20	76	13	60	33	0	0	66	0.92
1539087--1539165	19	4.4	18	75	21	69	59	1	0	39	1.06
1539071--1539147	34	2.2	35	86	9	104	58	1	0	40	1.06
1539130--1539166	18	2.0	19	89	5	58	56	2	0	40	1.13
1540413--1540456	15	2.9	15	96	0	79	54	11	0	34	1.36

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