genome.fa.s144.2.7.7.80.10.50.1000.10.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

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

This is table  10  of  21  ( 2468 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)
1358808--1358847	2	20.5	2	84	5	55	45	0	5	50	1.23
1359802--1359832	16	1.9	16	93	0	53	29	0	0	70	0.87
1362753--1362809	30	1.9	30	82	10	73	52	0	0	47	1.00
1362765--1362831	17	3.6	17	75	21	64	55	0	0	44	0.99
1362761--1362838	39	2.0	39	80	9	88	57	0	0	42	0.98
1364105--1364136	16	2.0	16	100	0	64	50	0	37	12	1.41
1365817--1365854	20	2.0	20	89	5	60	55	0	0	44	0.99
1367259--1367429	83	2.0	84	94	2	299	50	10	7	31	1.65
1368000--1368042	22	1.9	23	85	4	61	60	4	2	32	1.30
1368579--1368609	2	15.5	2	100	0	62	48	0	0	51	1.00
1376325--1376374	25	2.1	25	81	7	59	50	0	10	40	1.36
1376765--1376823	28	2.0	29	81	12	68	55	1	0	42	1.09
1376803--1376840	20	1.9	20	88	0	58	47	2	0	50	1.15
1377628--1377877	129	1.9	130	85	6	346	33	10	11	45	1.73
1379386--1379423	3	12.7	3	94	0	67	36	0	0	63	0.95
1383803--1383863	19	2.9	21	80	9	63	55	0	1	42	1.09
1383803--1383847	22	2.0	23	87	8	67	53	0	0	46	1.00
1384281--1384341	13	4.9	12	75	20	63	42	1	1	54	1.20
1384296--1384340	23	2.0	23	90	0	72	44	2	0	53	1.13
1384355--1384393	16	2.5	16	87	4	53	23	2	2	71	1.10
1386927--1386972	15	2.9	16	75	12	51	54	4	0	41	1.20
1387428--1387466	20	2.0	19	85	5	51	48	0	2	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1387483--1387540	20	2.9	20	80	10	73	37	0	0	62	0.96
1389649--1389695	3	15.7	3	100	0	94	65	0	0	34	0.93
1392391--1392417	5	5.4	5	100	0	54	44	0	0	55	0.99
1392479--1392528	21	2.5	20	84	15	59	52	0	4	44	1.20
1392817--1392869	15	3.8	14	75	7	54	30	5	0	64	1.17
1392971--1392996	7	3.7	7	100	0	52	88	0	0	11	0.52
1396014--1396045	2	16.0	2	100	0	64	50	0	0	50	1.00
1396433--1396515	2	41.5	2	100	0	166	0	49	0	50	1.00
1396515--1396540	2	13.0	2	100	0	52	50	0	0	50	1.00
1397274--1397307	17	2.0	17	88	0	50	58	0	0	41	0.98
1397315--1397354	21	1.9	21	84	0	53	45	7	7	40	1.61
1403734--1403758	13	1.9	13	100	0	50	36	16	16	32	1.90
1403821--1403845	13	1.9	13	100	0	50	32	16	16	36	1.90
1404457--1405110	49	12.8	52	72	14	248	33	15	25	25	1.95
1404567--1404693	67	1.9	68	85	1	175	38	12	24	24	1.90
1404364--1404847	227	2.1	225	84	4	636	35	14	25	24	1.93
1404648--1405123	49	9.8	49	80	7	467	30	17	26	26	1.97
1404750--1405123	140	2.7	141	87	2	536	29	17	26	25	1.97
1404750--1405128	92	4.1	92	82	9	410	30	17	27	25	1.97
1405116--1405315	65	3.1	63	88	7	280	18	18	34	29	1.95
1405116--1405315	32	6.3	31	87	6	285	18	18	34	29	1.95
1405133--1405315	97	1.9	96	88	5	215	18	19	32	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1405333--1405968	35	18.7	34	79	10	644	33	12	34	20	1.89
1405319--1405963	239	2.7	238	83	8	757	34	11	33	20	1.89
1406905--1406983	14	6.0	13	75	14	56	0	11	5	83	0.79
1406912--1406967	9	6.2	9	80	12	62	0	10	3	85	0.71
1406912--1406967	23	2.5	23	83	11	71	0	10	3	85	0.71
1406939--1406985	17	2.7	18	78	12	53	0	4	12	82	0.80
1406927--1406983	23	2.4	23	88	8	80	0	7	7	85	0.73
1406912--1406983	12	6.3	11	80	12	74	0	9	5	84	0.76
1409809--1410780	28	33.9	29	87	3	1271	27	31	18	22	1.97
1409809--1410765	371	2.6	369	93	2	1605	27	31	17	22	1.97
1411268--1411344	20	3.9	19	76	6	73	33	12	12	40	1.82
1411268--1411345	40	2.0	39	84	2	102	33	12	14	39	1.84
1425417--1425484	16	4.3	15	87	9	91	88	8	1	1	0.65
1425417--1425476	8	7.6	8	85	10	88	88	10	0	1	0.59
1425417--1425484	1	68.0	1	76	0	64	88	8	1	1	0.65
1426718--1427703	28	34.2	28	87	4	1263	27	31	18	22	1.97
1426718--1427703	144	6.9	142	86	5	1297	27	31	18	22	1.97
1428179--1428255	20	3.9	19	76	6	73	33	12	12	40	1.82
1428179--1428256	40	2.0	39	84	2	102	33	12	14	39	1.84
1429165--1429213	23	2.0	24	84	7	64	20	14	8	57	1.63
1435431--1435455	13	1.9	13	100	0	50	36	16	16	32	1.90
1435519--1435543	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439626--1439672	17	2.6	17	86	10	58	2	17	2	78	0.94
1440385--1440448	21	3.0	21	95	2	110	39	9	15	35	1.80
1442261--1442303	20	2.1	21	86	4	61	39	0	2	58	1.11
1442309--1442365	21	2.7	20	78	13	60	56	0	3	40	1.17
1444046--1444087	22	2.0	21	81	13	50	40	2	21	35	1.66
1447025--1447074	22	2.4	21	87	9	75	62	2	0	36	1.07
1447063--1447120	4	14.8	4	72	16	50	68	1	0	29	0.99
1447425--1447474	10	5.2	10	71	9	50	36	0	0	64	0.94
1447425--1447481	20	3.0	19	75	12	55	36	0	0	63	0.95
1447425--1447469	20	2.3	20	85	7	58	35	0	0	64	0.94
1447509--1447542	15	2.3	15	89	0	50	50	0	0	50	1.00
1447522--1447601	22	3.6	22	72	11	65	56	2	0	41	1.13
1447517--1447575	11	5.3	11	79	2	64	55	0	0	44	0.99
1449330--1449377	23	2.0	24	84	4	62	31	4	0	64	1.12
1455848--1455885	19	2.0	19	100	0	76	31	21	26	21	1.98
1457663--1457724	31	2.0	31	96	0	115	62	0	17	19	1.32
1460670--1460718	2	24.5	2	91	0	80	51	0	4	44	1.20
1462208--1462282	5	14.6	5	79	12	73	76	0	22	1	0.87
1462314--1462360	24	1.9	25	83	12	62	36	0	0	63	0.94
1469541--1469575	2	18.0	2	94	5	63	48	0	51	0	1.00
1471957--1472128	90	1.9	90	93	1	301	40	11	11	36	1.78
1475191--1475268	39	2.0	39	100	0	156	33	5	15	46	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1477188--1477257	36	1.9	36	97	0	131	47	11	12	28	1.77
1477395--1477508	56	2.1	55	88	1	165	39	11	13	35	1.80
1481686--1481742	24	2.5	21	74	20	51	54	0	0	45	0.99
1482047--1482073	13	2.1	13	100	0	54	44	0	0	55	0.99
1482368--1482392	2	12.5	2	100	0	50	0	52	0	48	1.00
1485023--1485077	22	2.5	21	77	17	58	47	0	0	52	1.00
1485812--1485845	18	1.9	17	88	5	50	55	2	0	41	1.15
1496743--1496781	13	3.0	13	92	0	60	35	12	17	33	1.88
1496743--1496846	46	2.3	46	83	3	120	39	14	16	29	1.88
1500681--1500732	21	2.4	21	77	3	59	25	9	3	61	1.44
1502951--1502976	13	2.0	13	100	0	52	30	15	15	38	1.88
1503593--1503634	3	14.0	3	100	0	84	33	33	0	33	1.58
1506095--1506180	34	2.5	35	84	3	104	41	15	10	32	1.81
1506097--1506296	69	2.9	68	74	13	167	44	15	8	33	1.75
1506131--1506248	34	3.5	33	77	12	114	41	16	6	35	1.74
1515367--1515419	26	2.0	26	96	0	97	30	26	3	39	1.74
1515371--1515429	26	2.4	25	88	8	86	32	20	1	45	1.61
1523482--1523540	13	5.1	13	73	26	69	40	15	15	28	1.87
1523494--1523558	19	3.7	19	76	23	88	41	15	15	27	1.87
1523482--1523558	32	2.4	32	100	0	154	40	15	15	28	1.88
1523668--1523719	21	2.4	22	84	9	63	44	15	5	34	1.70
1527279--1527304	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1529527--1529578	21	2.4	21	77	3	59	61	3	9	25	1.44
1533590--1533636	22	2.3	20	78	10	51	34	19	4	42	1.70
1535932--1535984	20	2.7	20	93	0	88	28	13	22	35	1.92
1536054--1536079	13	2.0	13	100	0	52	38	15	15	30	1.88
1538292--1538349	21	2.8	21	71	15	57	56	0	0	43	0.99
1538418--1538461	18	2.4	18	84	3	52	77	11	2	9	1.08
1538594--1538710	24	4.9	24	72	15	89	47	23	20	8	1.78
1539759--1539799	19	2.1	20	90	4	66	56	7	4	31	1.48
1548635--1548780	52	2.8	53	85	4	199	30	18	16	34	1.93
1548769--1548793	13	1.9	13	100	0	50	36	16	16	32	1.90

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