genome.fa.s79.2.7.7.80.10.50.1000.10.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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  10  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)
1376363--1376399	16	2.2	18	90	9	60	64	0	5	29	1.15
1377340--1377381	5	8.6	5	82	12	52	38	0	0	61	0.96
1377335--1377381	18	2.7	18	87	6	71	38	0	0	61	0.96
1377340--1377397	29	2.0	31	83	10	77	36	0	3	60	1.14
1377331--1377407	30	2.7	29	76	13	79	40	0	2	57	1.13
1380127--1380190	21	3.2	20	85	14	89	40	0	3	56	1.15
1380143--1380224	22	3.8	21	75	13	76	45	0	1	53	1.08
1380209--1380261	21	2.6	21	80	11	58	56	0	0	43	0.99
1380350--1380390	21	2.0	21	90	0	64	48	17	4	29	1.67
1380959--1381009	20	2.7	18	79	11	57	41	0	0	58	0.98
1380967--1381012	10	4.5	11	89	8	55	43	0	0	56	0.99
1389826--1389876	24	2.1	24	85	7	68	43	1	1	52	1.23
1389828--1389877	23	2.2	23	82	7	57	46	2	2	50	1.24
1389936--1389961	13	2.0	13	100	0	52	23	0	0	76	0.78
1391447--1391502	18	3.3	18	71	21	57	51	0	0	48	1.00
1391488--1391587	5	20.2	5	70	15	66	38	3	0	59	1.13
1391450--1391587	32	4.6	31	74	18	114	42	2	0	55	1.12
1391434--1391574	59	2.4	58	80	11	146	43	0	0	56	1.04
1391482--1391558	27	2.9	26	81	14	86	41	1	0	57	1.07
1391508--1391566	17	3.5	18	77	15	72	37	1	0	61	1.07
1391731--1391764	17	2.0	17	94	0	59	47	2	0	50	1.16
1391734--1391775	17	2.5	17	88	0	57	47	4	0	47	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391778--1391828	23	2.2	23	89	0	75	56	0	1	41	1.10
1392137--1392189	26	2.0	26	88	0	79	41	5	1	50	1.36
1392531--1392565	18	1.9	18	88	0	52	45	5	0	48	1.26
1396726--1396767	21	2.0	21	90	0	66	33	26	16	23	1.96
1396844--1396907	30	2.1	30	100	0	128	28	43	14	14	1.83
1396844--1396925	30	2.7	30	90	0	110	28	41	13	17	1.87
1401350--1401391	14	3.1	14	80	10	52	42	0	4	52	1.22
1401474--1401507	13	2.6	13	85	0	50	61	5	0	32	1.20
1401428--1401925	113	4.3	116	75	13	445	55	1	1	41	1.18
1401602--1401790	59	3.5	52	76	17	186	54	1	1	42	1.17
1401873--1401901	14	2.0	15	93	6	51	75	0	0	24	0.80
1402126--1402151	13	2.0	13	100	0	52	76	0	0	23	0.78
1402387--1402419	17	2.0	17	94	5	59	33	6	6	54	1.50
1404200--1404588	128	3.0	129	85	7	524	39	2	1	56	1.21
1404547--1404614	28	2.5	27	80	7	75	45	0	0	54	0.99
1404547--1404630	27	2.9	29	82	10	84	51	0	0	48	1.00
1404568--1404630	29	2.1	30	85	11	85	53	0	0	46	1.00
1404726--1404758	15	2.2	15	89	10	50	63	0	0	36	0.95
1404721--1404768	12	3.9	12	78	5	51	58	0	0	41	0.98
1405080--1405134	27	2.0	27	86	6	76	40	0	0	60	0.97
1409219--1409283	31	2.1	31	100	0	130	43	24	6	26	1.77
1411699--1411755	20	2.8	20	86	7	71	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1412163--1412226	29	2.2	29	82	0	83	51	1	0	46	1.10
1413824--1413889	21	3.1	21	69	16	55	48	0	1	50	1.10
1413869--1413942	35	2.1	35	82	9	89	55	1	0	43	1.08
1414744--1414799	20	2.8	19	79	15	51	53	0	1	44	1.11
1414782--1414833	21	2.5	23	76	20	60	53	0	0	46	1.00
1415120--1415187	20	3.7	20	67	25	67	52	0	0	47	1.00
1415184--1415218	11	3.0	11	91	8	52	37	0	0	62	0.95
1415177--1415218	19	2.2	19	87	8	59	38	0	0	61	0.96
1416920--1416957	17	2.3	17	86	4	51	76	2	0	21	0.91
1417568--1417616	17	3.0	17	72	16	50	55	0	0	44	0.99
1419291--1419316	2	13.0	2	100	0	52	50	0	0	50	1.00
1422130--1422195	17	4.1	17	76	18	70	42	0	0	57	0.98
1422116--1422195	31	2.6	30	83	11	92	41	0	0	58	0.98
1423600--1423652	15	3.5	15	76	2	52	60	1	0	37	1.08
1425220--1425249	2	15.0	2	100	0	60	50	0	0	50	1.00
1425593--1425617	11	2.3	11	100	0	50	28	0	8	64	1.22
1429253--1429296	22	2.0	22	86	8	63	38	2	4	54	1.33
1429512--1429562	14	3.7	14	73	2	50	50	0	0	49	1.00
1429852--1429898	18	2.6	18	89	0	76	34	4	14	46	1.64
1429857--1429894	16	2.4	16	90	0	58	31	2	18	47	1.62
1430756--1430786	2	15.5	2	93	0	53	48	0	3	48	1.17
1431254--1431314	21	2.9	21	73	7	61	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1433231--1433269	19	2.1	18	85	4	51	41	15	2	41	1.61
1433868--1433909	16	2.6	15	85	14	57	64	0	0	35	0.94
1434012--1434095	41	2.0	40	82	13	100	41	3	1	53	1.26
1436174--1436229	28	2.0	28	100	0	112	28	14	32	25	1.94
1436584--1436646	22	2.7	23	85	12	67	52	0	1	46	1.10
1436602--1436646	22	2.0	23	95	4	83	60	0	0	40	0.97
1437528--1437569	19	2.3	19	87	4	59	40	2	14	42	1.58
1438164--1438220	20	2.8	20	91	2	87	54	1	0	43	1.10
1439782--1439838	22	2.5	23	75	11	55	49	0	0	50	1.00
1439914--1439961	18	2.4	20	76	20	55	39	4	2	54	1.32
1439969--1440011	18	2.3	19	80	4	52	41	2	0	55	1.12
1439931--1440049	21	5.9	20	68	20	61	42	1	0	55	1.15
1440893--1440936	22	2.0	22	86	0	61	47	4	2	45	1.35
1441840--1441901	32	2.0	30	84	12	81	43	0	0	56	0.99
1441859--1441901	21	2.2	19	87	8	59	41	0	0	58	0.98
1442640--1442729	29	3.3	27	77	13	71	57	0	1	41	1.06
1442681--1442722	18	2.3	18	83	0	57	64	0	0	35	0.94
1442676--1442717	15	2.6	16	81	14	50	61	0	0	38	0.96
1442998--1443033	16	2.3	16	85	4	56	41	0	5	52	1.24
1444415--1444497	19	4.3	19	68	22	64	37	2	9	50	1.48
1446417--1446452	3	12.0	3	100	0	72	33	0	0	66	0.92
1448079--1448125	19	2.4	20	75	17	53	53	0	2	44	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1449004--1449028	8	3.1	8	100	0	50	40	0	0	60	0.97
1449119--1449149	2	15.5	2	93	0	53	0	45	0	54	0.99
1451646--1451707	23	2.6	23	78	14	63	51	1	1	45	1.20
1452508--1452547	15	2.7	14	85	11	53	45	2	0	52	1.14
1458649--1458709	31	2.0	31	81	6	72	40	8	3	47	1.49
1463800--1463836	12	3.0	13	88	7	51	48	0	0	51	1.00
1463990--1464077	34	2.6	34	77	16	96	62	1	0	36	1.03
1464050--1464087	19	2.1	18	95	5	67	52	0	0	47	1.00
1465547--1465603	17	3.2	17	71	9	60	31	24	12	31	1.92
1474575--1474601	10	2.7	10	100	0	54	7	22	18	51	1.70
1475005--1475080	29	2.5	30	83	14	93	50	0	1	48	1.09
1475010--1475080	11	6.2	11	75	13	54	50	0	1	47	1.09
1475021--1475084	21	3.1	21	78	12	71	48	0	1	50	1.10
1475337--1475377	18	2.3	17	87	8	55	78	0	12	9	0.98
1475321--1475375	26	2.2	25	83	3	65	74	0	14	10	1.07
1475568--1475621	23	2.4	23	81	3	65	81	1	7	9	0.94
1475665--1475700	18	2.0	18	88	0	54	77	0	5	16	0.94
1476070--1476157	40	2.2	38	82	11	97	76	4	6	12	1.14
1476269--1476326	23	2.5	23	75	16	57	77	6	3	12	1.09
1476585--1476638	21	2.5	21	72	3	54	77	3	11	7	1.09
1476746--1476830	26	3.3	26	71	14	68	72	2	14	10	1.20
1476872--1476917	10	4.3	10	82	15	56	82	2	4	10	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1476866--1476957	23	3.9	22	72	18	69	77	3	7	11	1.10
1476896--1476941	17	2.8	16	83	9	56	80	2	6	10	0.98
1476894--1476957	16	3.9	16	78	10	58	78	3	7	10	1.07
1476913--1476957	8	5.5	8	81	2	54	77	2	8	11	1.07
1476913--1476966	24	2.2	25	83	9	67	75	1	9	12	1.11
1477061--1477103	18	2.5	17	82	14	52	69	2	4	23	1.18
1478277--1478304	14	2.0	14	100	0	56	42	14	14	28	1.84
1478688--1478715	14	2.0	14	100	0	56	42	14	14	28	1.84
1479529--1479561	2	16.5	2	100	0	66	51	0	48	0	1.00
1480158--1480187	2	15.0	2	100	0	60	50	50	0	0	1.00

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