genome.fa.s60.2.7.7.80.10.50.1000.10.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

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  ( 2419 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)
1337815--1337848	17	1.9	18	88	5	52	58	0	0	41	0.98
1337895--1337956	26	2.4	28	76	23	80	37	0	0	62	0.95
1337893--1337964	33	2.3	34	76	13	82	40	0	0	59	0.97
1337906--1337953	23	2.0	23	88	12	69	35	0	0	64	0.94
1337934--1337989	29	2.0	28	82	10	69	48	0	3	48	1.19
1338029--1338062	16	2.1	17	88	5	52	35	0	0	64	0.94
1338184--1338214	16	1.9	16	93	0	53	41	3	0	54	1.16
1338202--1338245	23	1.9	23	86	9	63	59	0	0	40	0.98
1338617--1338672	25	2.2	26	81	15	73	44	0	0	55	0.99
1338680--1338803	41	3.1	41	73	16	111	48	0	0	51	1.00
1339673--1339743	27	2.6	27	86	6	99	49	19	5	25	1.70
1345624--1345654	2	15.5	2	100	0	62	48	0	51	0	1.00
1345747--1345779	2	16.5	2	100	0	66	51	0	0	48	1.00
1350047--1350683	316	2.0	315	95	0	1150	35	22	14	27	1.93
1351043--1351072	14	2.1	14	93	0	51	30	3	33	33	1.74
1353698--1353737	14	2.8	14	88	3	53	62	0	0	37	0.95
1354979--1355031	22	2.4	21	75	9	52	47	0	0	52	1.00
1355594--1355648	23	2.3	25	82	17	64	41	0	0	58	0.98
1357884--1357961	21	3.6	20	71	21	59	55	1	3	39	1.26
1362060--1362194	71	1.9	70	80	7	157	47	0	1	51	1.10
1362090--1362189	35	2.8	37	77	7	118	50	0	0	50	1.00
1362179--1362221	15	2.9	15	78	0	50	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)
1362681--1362711	2	15.5	2	100	0	62	51	0	0	48	1.00
1364632--1364667	2	18.0	2	94	0	63	50	2	0	47	1.15
1365351--1365388	20	1.9	20	94	0	67	55	13	7	23	1.64
1367962--1368006	24	1.9	23	81	4	54	46	4	4	44	1.43
1371450--1371492	20	2.2	20	83	8	52	37	4	0	58	1.19
1371476--1371592	10	11.6	10	68	27	54	38	0	4	57	1.19
1371479--1371561	32	2.6	33	76	16	75	38	0	6	55	1.25
1371538--1371583	17	2.6	17	90	10	67	34	0	0	65	0.93
1371538--1371591	17	3.1	17	82	15	65	37	0	0	62	0.95
1371836--1371878	22	2.0	23	86	9	63	51	2	0	46	1.13
1372685--1372736	16	3.3	15	78	5	59	57	3	1	36	1.28
1373814--1373838	2	12.5	2	100	0	50	52	0	0	48	1.00
1374233--1374280	21	2.3	21	85	0	60	47	0	0	52	1.00
1374891--1374932	13	3.4	12	81	12	50	26	0	0	73	0.83
1382710--1382735	3	8.7	3	100	0	52	34	0	0	65	0.93
1383146--1383208	21	3.0	20	84	11	65	52	0	0	47	1.00
1383976--1384001	3	8.7	3	100	0	52	30	0	0	69	0.89
1383981--1384083	47	2.1	48	89	3	154	44	3	6	44	1.48
1385092--1385251	85	1.9	85	85	2	223	23	13	16	46	1.82
1385983--1386055	2	37.0	2	87	2	103	46	1	2	49	1.24
1390334--1390361	13	2.2	13	100	0	56	64	0	0	35	0.94
1390509--1390538	14	2.1	15	93	6	53	83	0	0	16	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1392166--1392205	2	20.0	2	94	0	71	47	0	2	50	1.14
1392669--1392720	18	2.8	17	83	13	59	57	0	1	40	1.10
1392669--1392720	19	2.8	18	82	8	61	57	0	1	40	1.10
1392713--1392776	27	2.4	27	94	0	110	53	0	0	46	1.00
1395400--1395457	28	2.1	28	83	6	73	44	1	3	50	1.29
1399351--1399380	2	15.0	2	100	0	60	50	0	0	50	1.00
1405886--1405913	2	14.0	2	100	0	56	50	0	0	50	1.00
1407233--1407263	2	15.5	2	100	0	62	48	0	0	51	1.00
1407631--1407674	23	1.9	23	90	9	72	29	0	0	70	0.88
1408017--1408056	20	2.0	20	85	0	53	52	0	0	47	1.00
1408042--1408107	20	3.3	20	78	14	73	37	0	0	62	0.96
1408042--1408109	18	3.7	18	80	13	68	36	0	0	63	0.95
1408055--1408119	9	7.1	9	76	15	53	36	0	0	63	0.95
1408060--1408121	10	6.8	9	77	18	58	37	0	0	62	0.95
1408567--1408610	20	2.3	19	80	4	52	31	0	0	68	0.90
1409753--1409805	27	1.9	28	81	11	65	47	1	0	50	1.12
1410395--1410433	3	13.0	3	100	0	78	33	0	0	66	0.92
1410693--1410738	23	2.0	22	87	8	65	63	2	0	34	1.07
1410697--1410743	23	2.0	23	84	8	60	65	2	2	29	1.15
1410697--1410746	24	2.1	23	82	10	57	66	2	2	30	1.14
1410950--1410986	2	19.0	2	94	5	67	48	0	0	51	1.00
1420725--1420752	2	14.0	2	100	0	56	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)
1421107--1421140	2	17.0	2	100	0	68	50	0	0	50	1.00
1421342--1421464	14	9.1	14	66	21	57	59	1	0	38	1.13
1421344--1421400	25	2.2	26	84	9	73	63	1	0	35	1.05
1431102--1431136	2	17.5	2	100	0	70	51	0	48	0	1.00
1434945--1434979	17	2.1	17	100	0	70	48	17	11	22	1.79
1441146--1441183	2	19.5	2	94	5	69	52	0	47	0	1.00
1442430--1442468	19	2.0	20	85	5	53	41	0	2	56	1.13
1442443--1442501	22	2.5	23	86	13	68	52	0	0	47	1.00
1443260--1443295	2	18.0	2	88	0	54	50	5	0	44	1.25
1444512--1444545	16	2.1	16	88	0	50	55	0	0	44	0.99
1444502--1444557	23	2.5	24	80	11	64	48	0	0	51	1.00
1450996--1451028	16	2.1	16	88	11	50	54	3	0	42	1.15
1456187--1456218	3	10.7	3	93	0	55	0	37	0	62	0.95
1458977--1459004	9	3.1	9	100	0	56	57	0	10	32	1.33
1461724--1461782	22	2.8	21	87	7	75	62	0	0	37	0.95
1462115--1462228	16	7.5	15	64	15	56	57	5	1	35	1.32
1462170--1462230	25	2.6	23	78	19	63	57	0	0	42	0.98
1462184--1462228	15	3.0	15	78	12	56	60	0	0	40	0.97
1463866--1463890	13	1.9	13	100	0	50	44	0	8	48	1.32
1464804--1464853	22	2.2	22	86	10	66	40	0	0	60	0.97
1466303--1466336	2	17.0	2	87	0	50	44	0	0	55	0.99
1466303--1466336	10	3.4	10	95	0	59	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467839--1467883	20	2.3	19	81	7	54	66	0	4	28	1.11
1474466--1474500	2	17.5	2	100	0	70	0	51	0	48	1.00
1474670--1474694	12	2.1	12	100	0	50	32	28	8	32	1.86
1477553--1477586	2	17.0	2	100	0	68	50	0	0	50	1.00
1478769--1478835	31	2.1	32	83	2	82	49	0	0	50	1.00
1478832--1478890	20	2.9	20	75	9	57	55	3	0	40	1.16
1483793--1483847	12	4.5	12	76	13	58	38	0	0	61	0.96
1483749--1483847	26	4.2	25	70	22	70	37	1	1	60	1.10
1486244--1486296	14	4.1	13	79	16	65	54	1	1	41	1.22
1486221--1486299	25	3.4	24	80	16	94	55	2	1	40	1.21
1494510--1494593	14	6.4	14	68	18	54	53	0	2	44	1.13
1494507--1494556	9	5.3	9	76	9	55	64	0	0	36	0.94
1496096--1496148	17	3.2	17	75	19	58	66	0	0	33	0.92
1496372--1496415	23	2.0	22	86	13	63	59	0	0	40	0.98
1497190--1497254	27	2.3	30	76	17	75	41	0	0	58	0.98
1497198--1497260	28	2.3	28	78	15	69	41	0	0	58	0.98
1497195--1497263	27	2.5	26	76	19	70	42	0	0	57	0.98
1497944--1497980	17	2.2	17	95	0	65	45	0	0	54	1.00
1498046--1498122	40	1.9	41	86	2	111	46	3	0	49	1.20
1500038--1500109	24	3.2	23	73	15	60	58	0	0	41	0.98
1503277--1503307	11	2.8	11	95	0	53	9	0	90	0	0.46
1508766--1508790	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1509204--1509228	1	25.0	1	100	0	50	0	0	100	0	0.00
1509580--1509614	2	17.5	2	100	0	70	48	0	0	51	1.00
1519430--1519455	2	13.0	2	100	0	52	0	0	50	50	1.00
1521755--1521797	2	21.5	2	85	0	50	48	6	2	41	1.43
1522914--1523013	42	2.3	41	77	14	103	63	2	0	35	1.06
1523051--1523092	21	2.0	22	85	4	59	69	0	2	28	1.01
1523439--1523500	25	2.5	24	77	10	72	51	0	0	48	1.00
1523641--1523677	16	2.3	16	90	0	56	62	0	0	37	0.96
1526036--1526060	12	2.1	12	100	0	50	16	0	0	84	0.63
1526413--1526473	20	3.3	19	69	19	56	55	1	0	42	1.09

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