genome.fa.s11.2.7.7.80.10.50.1000.10.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   27   28   29   

This is table  10  of  29  ( 3461 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)
1366386--1366755	199	1.9	195	90	2	587	37	12	2	47	1.55
1366728--1366778	14	3.6	14	73	5	57	49	1	0	49	1.12
1366729--1366784	29	1.9	29	96	0	103	53	1	0	44	1.11
1371194--1371234	21	1.9	22	85	5	57	34	9	4	51	1.56
1371942--1371985	17	2.4	20	78	17	51	63	2	0	34	1.07
1372082--1372116	8	4.1	8	86	13	52	40	0	0	60	0.97
1372184--1372226	22	2.0	22	85	0	59	58	2	0	39	1.11
1373149--1373197	16	2.9	18	73	14	59	51	2	6	40	1.38
1373325--1373367	22	2.0	21	86	4	59	46	6	9	37	1.63
1373744--1373796	19	2.8	19	83	11	74	49	0	0	50	1.00
1373745--1373802	10	6.0	10	78	10	59	48	0	0	51	1.00
1373743--1373805	19	3.3	19	74	12	67	50	0	0	49	1.00
1373745--1373815	25	2.9	24	70	15	65	47	0	0	52	1.00
1376258--1376282	11	2.3	11	100	0	50	68	0	0	32	0.90
1379386--1379423	19	2.1	19	85	5	51	52	0	0	47	1.00
1380383--1380437	19	2.8	20	76	15	60	21	0	9	69	1.16
1382352--1382401	20	2.5	21	77	9	59	40	0	4	56	1.18
1385800--1385828	3	9.7	3	100	0	58	31	0	0	68	0.89
1386581--1386623	22	2.0	22	90	9	70	44	0	0	55	0.99
1388692--1388741	15	3.2	15	81	13	57	66	2	0	32	1.03
1389084--1389135	25	2.1	24	83	16	63	46	1	0	51	1.12
1389122--1389165	19	2.4	18	84	3	52	38	6	0	54	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1389907--1389948	17	2.5	17	88	3	59	52	0	9	38	1.34
1390825--1390876	15	3.4	14	73	21	50	40	0	1	57	1.10
1392723--1392759	14	2.7	13	88	12	56	54	0	0	45	1.00
1392711--1392765	23	2.4	23	82	8	67	52	0	0	47	1.00
1392731--1392761	14	2.2	14	100	0	62	58	0	0	41	0.98
1393000--1393038	18	2.2	18	90	0	60	74	0	0	25	0.82
1393040--1393094	20	2.7	20	78	10	58	52	7	0	40	1.29
1397495--1397528	14	2.5	13	90	9	59	47	0	0	52	1.00
1397725--1397803	22	3.8	20	75	15	72	51	7	0	40	1.30
1400366--1400409	21	2.1	21	88	12	65	50	9	0	40	1.34
1402232--1402293	32	1.9	33	87	9	92	51	1	0	46	1.10
1402231--1402278	16	3.1	15	77	17	53	50	2	0	47	1.12
1405108--1405331	124	1.8	124	86	1	324	45	18	7	29	1.76
1406340--1406365	7	3.7	7	100	0	52	57	0	0	42	0.98
1406479--1406542	15	4.3	15	74	4	58	51	1	1	45	1.20
1407015--1407063	24	2.0	24	84	7	64	36	0	0	63	0.95
1407136--1407275	39	3.7	36	73	17	122	34	2	5	58	1.32
1407196--1407235	11	3.5	11	89	3	62	37	0	0	62	0.95
1407070--1407717	296	2.2	292	90	4	1013	35	8	8	47	1.63
1407485--1407518	11	3.1	11	82	0	50	38	0	0	61	0.96
1411433--1412272	182	4.7	181	84	6	980	34	15	8	42	1.76
1411433--1412272	273	3.1	268	83	7	1013	34	15	8	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411433--1412272	361	2.3	362	85	5	1112	34	15	8	42	1.76
1413778--1413871	26	3.7	26	91	4	140	51	11	3	34	1.55
1413787--1413853	13	5.2	13	72	13	57	52	14	2	29	1.57
1413794--1413862	13	5.3	13	73	13	70	49	13	4	33	1.61
1415951--1416029	26	3.0	27	73	12	83	44	3	7	44	1.50
1417827--1418044	34	6.5	34	85	5	282	40	27	7	24	1.82
1417825--1418044	67	3.3	67	88	1	323	40	27	7	24	1.82
1422110--1422172	19	3.3	19	90	0	90	34	19	17	28	1.94
1422477--1422692	34	6.4	34	85	5	278	40	27	7	24	1.83
1422475--1422692	67	3.2	67	88	1	319	40	27	7	24	1.82
1422792--1422824	13	2.4	14	85	5	50	45	0	0	54	0.99
1423137--1423170	16	2.2	15	89	5	50	73	0	0	26	0.83
1423138--1423179	22	1.9	22	85	9	59	71	0	0	28	0.86
1423137--1423203	25	2.7	25	76	17	68	65	1	1	31	1.10
1423194--1423246	17	3.2	17	73	24	51	50	3	0	45	1.19
1423191--1423248	15	3.4	18	71	26	54	51	3	0	44	1.18
1427347--1427398	21	2.4	22	84	12	72	51	9	1	36	1.46
1428043--1428108	26	2.7	25	83	6	91	53	12	3	31	1.53
1429858--1429915	28	2.0	30	86	6	84	67	1	0	31	1.01
1429943--1430006	20	3.0	21	82	15	78	42	10	0	46	1.39
1429949--1430006	19	2.8	20	82	12	64	43	10	0	46	1.38
1429944--1430008	23	3.0	23	76	19	77	40	10	0	49	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1431073--1431131	24	2.6	23	81	5	66	47	1	0	50	1.11
1431355--1431404	22	2.3	21	77	12	57	54	2	0	44	1.11
1431402--1431447	20	2.3	20	88	7	67	71	4	0	23	1.03
1431444--1431506	32	1.9	34	90	6	103	55	0	0	44	0.99
1431432--1431505	32	2.4	31	82	12	91	56	0	0	43	0.99
1431444--1431524	27	2.8	28	77	19	71	55	1	0	43	1.07
1434174--1434198	13	1.9	13	100	0	50	8	32	12	48	1.69
1439681--1439817	53	2.6	53	88	3	197	26	32	18	22	1.97
1439683--1439874	104	1.8	105	80	5	228	25	32	17	24	1.97
1441561--1441594	13	2.5	14	95	4	61	32	44	17	5	1.73
1444043--1444080	18	2.1	18	85	9	51	31	0	0	68	0.90
1446042--1446084	2	22.5	2	90	9	72	51	0	0	48	1.00
1446461--1446491	2	15.5	2	100	0	62	0	48	0	51	1.00
1449185--1449224	2	20.0	2	100	0	80	50	0	0	50	1.00
1451942--1451971	2	15.0	2	100	0	60	50	0	0	50	1.00
1452919--1452952	16	2.1	16	89	10	52	41	0	0	58	0.98
1453831--1453913	2	43.5	2	79	17	88	45	0	4	49	1.23
1453854--1453930	38	2.0	38	97	0	145	37	0	11	50	1.39
1453980--1454049	29	2.5	28	82	11	81	44	0	1	54	1.09
1454043--1454092	25	2.0	25	92	7	84	34	2	0	64	1.05
1454084--1454136	23	2.2	25	86	6	74	33	1	0	64	1.05
1454004--1454134	42	3.1	41	74	18	119	38	1	0	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1454054--1454137	35	2.5	34	76	19	95	35	2	0	61	1.09
1454074--1454142	37	1.9	35	88	5	102	37	2	0	59	1.12
1454209--1454243	2	17.5	2	93	0	61	0	48	2	48	1.16
1454484--1454552	28	2.6	28	77	6	72	30	4	14	50	1.62
1454626--1454665	19	2.0	20	95	4	73	10	47	2	40	1.50
1455753--1455790	2	19.0	2	100	0	76	50	0	0	50	1.00
1458001--1458059	29	2.0	29	87	6	84	38	0	0	61	0.96
1458756--1458787	16	2.0	16	93	0	55	46	0	0	53	1.00
1459461--1459547	22	4.0	22	71	15	65	57	2	1	39	1.19
1459471--1459509	18	2.0	20	85	9	55	51	0	0	48	1.00
1460717--1460749	2	16.5	2	93	0	57	48	0	0	51	1.00
1462052--1462102	20	2.4	21	80	9	59	37	1	0	60	1.08
1462794--1463010	34	6.4	34	84	3	260	26	6	24	42	1.79
1462794--1463012	67	3.3	67	85	2	296	26	6	25	42	1.78
1464811--1465029	34	6.5	34	83	2	253	26	7	24	41	1.81
1464811--1465029	102	2.2	101	87	1	312	26	7	24	41	1.81
1465750--1465807	26	2.1	28	82	17	70	43	6	1	48	1.40
1468657--1468699	22	2.0	22	81	9	52	60	0	0	39	0.97
1469973--1470275	100	3.0	98	91	3	480	46	13	6	33	1.69
1470911--1470957	21	2.2	21	88	0	67	51	4	0	44	1.21
1471029--1471067	20	2.0	20	90	10	62	35	0	0	64	0.94
1471909--1471952	19	2.4	19	85	11	56	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)
1472365--1472407	20	2.2	20	86	0	59	62	2	0	34	1.08
1473250--1473295	21	2.1	23	84	8	60	41	2	4	52	1.33
1474276--1474323	12	4.1	11	75	15	51	72	0	0	27	0.84
1474276--1474323	18	2.7	18	80	0	60	72	0	0	27	0.84
1475494--1475540	10	5.1	10	78	21	50	29	0	0	70	0.88
1475861--1475923	28	2.2	28	83	8	83	55	1	0	42	1.09
1475861--1475933	27	2.6	28	85	8	87	53	1	0	45	1.09
1479685--1480122	221	2.0	220	93	0	750	30	16	15	38	1.89
1480353--1480438	43	2.0	43	97	0	163	27	10	17	44	1.81
1480728--1480959	118	2.0	118	88	0	347	21	12	19	46	1.83

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   27   28   29