genome.fa.s220.2.7.7.80.10.50.1000.6.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

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

This is table  6  of  19  ( 2201 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)
1324259--1324338	15	5.0	16	76	19	69	67	0	3	28	1.08
1324355--1324456	44	2.3	45	84	5	127	53	4	2	38	1.37
1331124--1331158	2	17.5	2	87	0	52	48	45	2	2	1.32
1331121--1331158	20	1.9	20	100	0	76	47	44	2	5	1.39
1334785--1334813	2	14.5	2	100	0	58	48	0	0	51	1.00
1341959--1342028	10	7.0	9	73	23	52	68	0	1	30	0.98
1341965--1342031	18	3.8	16	79	13	62	67	0	1	31	1.00
1341961--1342028	19	3.3	20	68	27	54	67	0	1	30	0.99
1341997--1342052	19	2.9	19	79	12	53	60	0	1	37	1.07
1347301--1347344	15	2.9	15	76	10	54	56	0	0	43	0.99
1347309--1347356	25	2.0	24	87	4	69	62	0	0	37	0.95
1348177--1348247	30	2.4	29	81	11	81	53	0	0	46	1.00
1348165--1348240	27	2.7	27	80	13	84	47	0	1	51	1.09
1349840--1349897	30	1.9	31	89	10	93	60	0	0	39	0.97
1361936--1361988	23	2.3	23	93	0	88	37	3	3	54	1.36
1365593--1365679	46	1.9	44	88	9	131	59	0	0	40	0.97
1365568--1365679	27	4.0	28	73	19	90	63	0	0	36	0.95
1365610--1365668	19	3.0	20	82	7	68	59	0	0	40	0.97
1365590--1365671	10	7.4	11	71	24	57	62	0	0	37	0.96
1365557--1365667	15	7.8	15	67	30	57	63	0	0	36	1.01
1372003--1372118	58	2.0	58	100	0	232	31	13	20	34	1.92
1372523--1372565	2	21.5	2	100	0	86	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1373154--1373211	28	2.1	28	87	3	82	46	0	0	53	1.00
1373144--1373215	36	1.9	38	86	5	103	45	0	0	54	0.99
1383483--1383529	23	2.0	23	88	8	69	70	4	0	25	1.05
1383539--1383579	20	2.0	20	90	9	64	53	0	0	46	1.00
1385522--1385546	3	8.3	3	100	0	50	68	0	0	32	0.90
1385914--1385946	17	1.9	17	93	0	57	51	3	0	45	1.16
1391535--1391596	16	3.9	15	79	8	52	45	0	0	54	0.99
1391551--1391601	16	3.1	16	77	2	57	39	0	0	60	0.97
1393052--1393098	21	2.3	21	78	10	53	51	2	4	42	1.33
1393112--1393177	29	2.2	31	79	17	77	42	0	0	57	0.98
1393136--1393201	18	3.7	18	74	11	64	42	0	0	57	0.98
1393138--1393241	35	2.7	39	81	11	108	44	0	0	55	0.99
1393212--1393297	23	3.6	22	68	18	57	53	0	0	46	1.00
1393238--1393297	28	2.1	28	82	14	70	53	0	0	46	1.00
1397983--1398049	8	8.1	8	80	3	62	64	0	0	35	0.94
1398009--1398049	9	4.6	9	90	9	66	68	0	0	31	0.90
1401552--1401582	2	15.5	2	100	0	62	0	0	51	48	1.00
1403345--1403398	22	2.4	22	82	11	65	61	0	0	38	0.96
1406354--1406392	18	2.2	18	86	4	53	58	12	23	5	1.54
1412771--1412840	35	2.0	35	100	0	140	20	8	28	42	1.81
1415352--1415388	2	18.5	2	100	0	74	51	0	0	48	1.00
1415538--1415959	234	1.8	226	86	5	549	40	6	8	43	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1424545--1424588	6	7.3	6	84	0	61	11	4	68	15	1.36
1429393--1429458	33	2.0	33	96	0	123	27	24	22	25	2.00
1429570--1429596	8	3.4	8	100	0	54	66	0	0	33	0.92
1429900--1429947	2	24.0	2	95	0	87	52	0	0	47	1.00
1432885--1432963	33	2.4	33	91	0	131	51	1	0	46	1.08
1433749--1433781	9	3.6	9	92	8	57	81	9	0	9	0.87
1433747--1433808	11	5.9	11	81	7	67	79	4	1	14	0.98
1433748--1433782	10	3.6	10	92	7	63	82	8	0	8	0.83
1434177--1434221	12	3.5	13	82	11	56	35	0	2	62	1.08
1434996--1435211	34	6.4	34	88	1	283	25	7	26	39	1.83
1434996--1435211	67	3.2	67	86	1	297	25	7	26	39	1.83
1439622--1439839	34	6.5	34	88	1	287	25	7	26	40	1.82
1439622--1439841	67	3.3	67	87	1	314	25	7	26	40	1.82
1440913--1440952	10	4.0	10	81	12	55	30	2	0	67	1.04
1440944--1440985	18	2.3	18	88	8	59	40	2	4	52	1.35
1441500--1441533	2	17.0	2	100	0	68	50	0	0	50	1.00
1443195--1443268	36	2.0	36	82	7	87	36	0	5	58	1.21
1443230--1443296	16	4.2	17	73	17	54	40	0	0	59	0.97
1443243--1443312	15	4.5	15	70	16	54	37	0	0	62	0.95
1448737--1448783	20	2.3	20	75	7	51	61	2	0	36	1.08
1456695--1456726	3	10.7	3	100	0	64	31	0	0	68	0.90
1456770--1456820	26	2.0	26	96	0	93	7	31	3	56	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1457003--1457050	23	2.1	22	84	3	60	43	0	0	56	0.99
1457039--1457081	19	2.4	17	82	17	52	51	0	0	48	1.00
1457014--1457060	23	2.1	23	84	4	60	44	0	0	55	0.99
1457034--1457093	31	2.0	30	86	3	84	50	0	1	48	1.11
1457562--1457613	24	2.2	24	83	12	65	30	0	1	67	1.02
1457768--1457855	17	5.6	16	73	17	78	68	1	1	29	1.04
1457830--1457885	29	1.9	29	85	7	78	62	0	0	37	0.95
1457768--1457893	35	3.6	37	74	22	119	64	0	0	34	1.05
1461036--1461066	14	2.1	14	94	5	53	0	9	0	90	0.46
1461040--1461064	11	2.3	11	100	0	50	0	8	0	92	0.40
1461044--1461068	13	1.9	13	100	0	50	0	8	0	92	0.40
1461507--1461544	15	2.5	15	87	8	51	39	0	0	60	0.97
1461561--1461607	17	2.7	17	83	9	51	46	0	0	53	1.00
1469742--1469794	14	3.4	16	82	12	65	64	0	0	35	0.94
1469743--1469797	15	3.7	15	83	13	69	63	0	0	36	0.95
1469757--1469831	16	4.7	17	75	17	63	61	1	0	37	1.05
1469768--1469842	16	4.4	17	76	8	64	57	2	0	40	1.13
1469744--1469853	11	9.9	11	69	17	59	58	1	0	40	1.09
1469810--1469874	26	2.4	27	80	7	71	56	3	3	36	1.30
1473200--1473234	18	2.0	18	88	5	54	68	0	2	28	1.04
1476855--1476908	19	2.6	19	78	21	56	55	0	0	44	0.99
1477114--1477147	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1485198--1485249	26	2.0	26	100	0	104	50	11	11	26	1.73
1490508--1490536	2	14.5	2	100	0	58	0	48	0	51	1.00
1495585--1495638	16	3.4	15	80	16	56	35	1	0	62	1.06
1498314--1498344	2	15.5	2	100	0	62	51	0	0	48	1.00
1507230--1507267	12	3.4	11	85	14	51	55	0	0	44	0.99
1507224--1507267	22	2.0	22	86	8	63	50	0	0	50	1.00
1508568--1508593	2	13.0	2	100	0	52	0	50	0	50	1.00
1508593--1508617	2	12.5	2	100	0	50	48	0	0	52	1.00
1509917--1509972	18	3.1	18	80	12	60	64	0	0	35	0.94
1509945--1509969	13	1.9	13	100	0	50	64	0	0	36	0.94
1509919--1509965	24	2.0	24	83	8	60	70	0	0	29	0.88
1509917--1509973	25	2.3	25	75	3	62	64	0	0	35	0.93
1510146--1510208	33	1.9	33	96	0	117	28	17	17	36	1.93
1510320--1510355	2	18.0	2	94	0	63	47	0	2	50	1.15
1511920--1511968	14	3.4	14	79	20	57	28	2	4	65	1.22
1513319--1513348	6	5.0	6	95	0	51	0	20	0	80	0.72
1513656--1513699	24	1.9	24	86	9	65	43	4	2	50	1.35
1514501--1514526	2	13.0	2	100	0	52	50	0	0	50	1.00
1515552--1515594	21	2.0	22	90	4	70	60	0	0	39	0.97
1515897--1515961	32	2.0	32	82	5	78	47	1	0	50	1.10
1517771--1517850	41	2.0	41	82	5	99	25	17	11	46	1.81
1518885--1518928	7	6.6	7	92	5	56	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)
1518887--1518972	6	13.5	6	78	17	68	50	3	1	45	1.26
1518887--1518972	13	6.2	13	72	16	66	50	3	1	45	1.26
1519114--1519158	14	3.1	15	78	9	58	44	2	0	53	1.13
1519651--1519703	2	26.5	2	92	0	88	45	0	1	52	1.11
1520709--1520741	15	2.2	15	89	10	50	66	0	33	0	0.92
1521839--1521879	3	13.7	3	100	0	82	65	0	0	34	0.93
1523373--1523415	10	4.1	10	80	11	50	48	13	2	34	1.56
1525527--1525580	27	2.0	27	100	0	108	40	14	18	25	1.89
1527035--1527112	39	2.0	39	97	0	147	14	19	15	51	1.77
1527700--1527872	87	2.0	87	85	8	235	36	13	28	20	1.91

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