genome.fa.s158.2.7.7.80.10.50.1000.10.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: Scaffold158
Parameters: 2 7 7 80 10 50 1000
Length:  1811518

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  10  of  13  ( 1497 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)
1337801--1338245	110	4.0	110	89	4	676	22	20	28	27	1.99
1339213--1339275	1	63.0	1	79	0	63	0	4	6	88	0.61
1339216--1339275	18	3.5	17	84	8	77	0	5	6	88	0.63
1339213--1339276	13	4.8	13	87	11	85	0	4	7	87	0.66
1339213--1339276	25	2.5	26	87	7	87	0	4	7	87	0.66
1351833--1351909	28	2.8	28	80	11	86	27	20	29	22	1.98
1354371--1354396	13	2.0	13	100	0	52	38	15	15	30	1.88
1354350--1354416	33	2.0	33	88	0	98	43	16	14	25	1.86
1354436--1354503	19	3.9	18	76	23	83	38	14	11	35	1.83
1354458--1354482	13	1.9	13	100	0	50	32	16	16	36	1.90
1354439--1354501	32	2.0	32	96	0	117	36	15	12	34	1.86
1354539--1354640	20	5.1	20	89	4	152	32	11	17	38	1.86
1354539--1354640	41	2.5	41	90	4	154	32	11	17	38	1.86
1356590--1356646	10	5.9	10	87	6	82	84	14	0	1	0.71
1356586--1356635	19	2.7	19	90	6	77	84	16	0	0	0.63
1356591--1356646	24	2.3	24	96	0	103	83	14	0	1	0.72
1358086--1358262	29	6.0	30	80	10	195	27	29	17	25	1.97
1358082--1358376	30	9.7	30	76	11	185	28	28	15	27	1.97
1358082--1358262	59	3.1	59	83	4	222	27	29	17	25	1.97
1358303--1358426	28	4.3	29	85	7	148	37	28	14	19	1.91
1358542--1358631	43	2.1	43	93	0	153	26	24	17	31	1.97
1358446--1358684	92	2.5	95	86	6	322	25	25	16	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1358585--1358738	52	2.9	53	81	4	193	24	24	15	35	1.94
1359523--1359589	33	2.0	33	85	0	89	32	10	14	41	1.80
1359630--1359654	13	1.9	13	100	0	50	32	16	16	36	1.90
1359643--1359791	52	2.9	51	88	4	226	32	19	17	30	1.95
1365229--1365269	20	2.0	20	85	4	55	24	34	2	39	1.69
1384951--1385004	21	2.5	21	84	3	63	18	20	0	61	1.35
1384966--1385009	21	2.1	21	87	8	63	20	15	0	63	1.31
1386322--1386350	13	2.2	13	100	0	58	41	17	13	27	1.87
1388608--1388660	10	5.1	10	77	8	61	20	24	13	41	1.88
1388608--1388733	32	3.9	32	89	0	180	26	20	12	40	1.88
1392656--1392696	21	2.0	21	86	9	59	39	0	0	60	0.96
1392675--1392735	31	2.1	29	87	9	88	50	0	0	49	1.00
1392683--1392735	20	2.6	21	76	8	56	52	0	0	47	1.00
1398460--1398619	2	80.0	2	87	0	104	38	3	11	46	1.56
1398492--1398619	50	2.6	48	88	2	193	35	0	14	50	1.44
1398492--1398627	22	6.0	22	77	6	128	34	0	14	50	1.43
1408166--1408197	7	4.7	7	92	7	57	0	25	0	75	0.81
1408166--1408197	13	2.4	14	94	5	57	0	25	0	75	0.81
1409796--1409846	25	2.0	25	100	0	102	31	15	23	29	1.95
1410744--1410781	2	19.0	2	94	0	67	47	0	2	50	1.15
1412103--1412153	24	2.1	24	85	7	68	43	1	1	52	1.23
1412916--1413023	37	2.9	37	78	10	112	52	0	0	46	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1413578--1413644	6	11.2	6	75	12	66	31	1	4	62	1.24
1413614--1413656	18	2.4	18	88	0	59	34	4	0	60	1.17
1414521--1414570	19	2.5	20	80	9	57	66	0	4	30	1.10
1415359--1415391	2	16.5	2	100	0	66	51	0	0	48	1.00
1415679--1415718	21	2.0	20	90	5	62	70	2	0	27	1.01
1416041--1416108	25	2.8	23	78	17	59	63	0	4	32	1.14
1417756--1417800	3	15.0	3	100	0	90	66	0	0	33	0.92
1418283--1418353	27	2.4	29	77	20	76	61	0	4	33	1.15
1420042--1420102	28	2.1	29	85	8	81	65	0	1	32	1.02
1420798--1420836	8	4.6	8	84	9	51	30	0	0	69	0.89
1420799--1420836	17	2.2	17	90	4	58	28	0	0	71	0.87
1421928--1421960	15	2.1	16	88	5	50	48	6	18	27	1.71
1422070--1422110	6	6.5	6	86	8	55	39	2	0	58	1.11
1428163--1428209	23	2.0	25	83	8	62	36	2	2	59	1.21
1433271--1433353	43	1.9	43	95	0	148	30	21	8	39	1.83
1438845--1438892	23	2.0	24	88	4	71	33	0	0	66	0.92
1438814--1438908	23	4.7	19	68	22	52	41	0	0	58	0.98
1439311--1439381	21	3.4	21	74	14	58	45	0	0	54	0.99
1439324--1439380	30	1.9	29	86	10	80	42	0	0	57	0.98
1439283--1439377	42	2.4	38	73	16	93	41	0	1	57	1.05
1439399--1439461	24	2.4	26	79	17	76	50	0	0	49	1.00
1439413--1439459	24	1.9	25	91	4	78	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1440751--1440813	27	2.3	29	76	17	71	63	3	3	30	1.25
1442743--1442780	17	2.5	15	80	19	51	78	0	0	21	0.74
1442737--1442799	22	2.8	22	73	22	58	73	1	0	25	0.93
1442735--1442800	21	2.9	22	73	19	55	71	1	0	27	0.95
1443223--1443375	66	2.4	66	81	13	176	60	3	1	34	1.21
1444171--1444243	22	3.2	22	79	11	76	61	1	0	36	1.05
1444159--1444233	27	2.8	26	74	20	66	60	1	1	37	1.14
1444228--1444310	8	9.5	8	70	19	51	60	1	0	38	1.05
1444175--1444324	61	2.5	57	74	20	132	59	1	0	38	1.11
1445977--1446080	32	3.2	32	64	15	88	26	14	17	41	1.88
1445945--1446130	63	3.0	64	96	2	333	24	15	17	41	1.88
1452210--1452286	20	3.8	20	79	6	93	40	11	14	33	1.82
1452844--1453544	29	23.9	29	86	6	837	24	17	29	28	1.97
1452844--1453544	57	11.9	58	84	7	785	24	17	29	28	1.97
1454774--1454812	10	3.9	10	83	10	53	0	2	7	89	0.56
1454774--1454810	19	1.9	19	94	0	65	0	2	8	89	0.58
1454763--1454813	11	4.5	11	85	4	66	1	3	7	86	0.77
1470723--1470797	20	3.8	19	78	7	87	41	12	13	33	1.81
1472290--1472364	20	3.8	19	78	7	87	41	12	13	33	1.81
1476975--1477034	3	20.0	3	100	0	120	33	0	0	66	0.92
1479968--1480001	2	16.5	2	93	6	59	47	0	2	50	1.16
1480080--1480119	13	3.1	13	82	13	55	22	30	2	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1482803--1482835	5	6.6	5	86	13	50	81	0	3	15	0.80
1483532--1483574	20	2.2	20	86	0	59	41	2	6	48	1.43
1484194--1484227	14	2.3	15	90	5	52	38	0	2	58	1.13
1484211--1484267	18	3.3	18	76	11	57	42	1	0	56	1.10
1484241--1484270	15	2.0	15	93	0	51	56	0	0	43	0.99
1485079--1485161	32	2.5	33	81	11	100	56	1	0	42	1.07
1485112--1485155	18	2.3	20	80	7	56	59	0	0	40	0.98
1485727--1485808	41	2.0	41	100	0	164	46	4	12	36	1.63
1486478--1486523	23	2.0	23	87	8	67	41	0	0	58	0.98
1487028--1487100	34	2.1	34	92	0	119	53	0	4	42	1.20
1488331--1488368	17	2.2	18	90	4	60	42	0	0	57	0.98
1492104--1492187	42	2.0	42	92	0	141	40	8	13	38	1.74
1492611--1492667	23	2.5	23	77	2	62	45	0	0	54	0.99
1493682--1493738	27	2.1	28	87	9	82	29	3	3	63	1.28
1496220--1496247	3	9.3	3	100	0	56	64	0	0	35	0.94
1496357--1496381	2	12.5	2	100	0	50	48	0	0	52	1.00
1496684--1496742	23	2.5	23	78	18	59	55	0	0	44	0.99
1496740--1496784	16	2.9	16	86	3	56	44	0	0	55	0.99
1496701--1496789	24	3.5	24	74	20	74	50	0	0	49	1.00
1496921--1496958	2	19.5	2	86	5	51	44	2	2	50	1.30
1497435--1497469	2	17.5	2	100	0	70	48	0	0	51	1.00
1497869--1497917	18	2.6	18	74	20	55	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1498556--1499291	225	3.2	227	78	7	710	45	7	6	40	1.57
1499382--1499442	21	3.0	20	81	11	70	54	8	3	34	1.47
1499594--1499635	20	2.1	20	86	0	57	35	0	2	61	1.09
1499818--1499871	21	2.6	21	80	8	58	53	9	5	31	1.56
1499307--1500517	427	2.9	422	85	7	1503	43	4	6	45	1.52
1500426--1500468	20	2.1	20	86	4	59	34	0	4	60	1.17
1500212--1500998	406	1.9	409	83	9	1005	43	5	7	44	1.55
1501883--1501944	18	3.0	21	72	18	58	50	0	1	48	1.10
1502303--1502357	28	2.0	28	85	7	76	70	0	1	27	0.97
1511418--1511687	116	2.4	110	80	13	300	44	1	4	49	1.32

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13