genome.fa.s63.2.7.7.80.10.50.1000.10.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

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

This is table  10  of  16  ( 1834 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)
1464080--1464149	29	2.4	29	82	13	83	57	1	1	40	1.17
1465503--1465558	22	2.4	23	80	11	62	57	0	3	39	1.16
1466196--1466223	2	14.0	2	100	0	56	50	0	0	50	1.00
1466755--1466793	4	9.8	4	88	0	60	76	0	23	0	0.78
1470672--1470740	26	2.6	25	68	17	59	44	0	0	55	0.99
1471153--1471204	16	3.2	16	71	15	52	51	0	3	44	1.19
1471336--1471391	24	2.2	25	87	6	78	32	0	1	66	1.03
1472017--1472058	21	2.0	22	85	4	59	38	0	7	54	1.28
1472121--1472155	18	1.9	18	88	0	52	40	0	5	54	1.24
1472618--1472651	16	2.1	16	94	0	59	29	2	0	67	1.05
1472629--1472664	11	3.3	11	88	11	56	30	0	0	69	0.89
1472616--1472673	22	2.6	22	83	8	64	32	1	0	65	1.03
1472787--1472876	10	7.8	12	73	16	59	46	0	2	51	1.13
1472797--1472874	23	3.5	22	81	13	70	47	0	2	50	1.15
1473229--1473271	14	2.9	15	82	10	52	51	0	9	39	1.34
1473896--1474009	30	3.8	29	73	13	88	49	2	6	42	1.41
1474612--1474646	17	2.1	17	89	10	54	45	5	2	45	1.41
1474631--1474703	29	2.5	28	75	14	76	50	2	9	36	1.49
1476646--1476702	20	2.8	19	76	10	51	43	3	0	52	1.18
1477757--1477834	13	5.7	15	73	23	57	37	1	1	60	1.13
1478357--1478413	28	2.1	27	83	9	71	56	0	0	43	0.99
1478698--1478751	22	2.5	22	80	17	67	70	3	5	20	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1478698--1478809	21	5.3	20	69	18	66	66	4	3	25	1.26
1478774--1478828	20	2.6	21	88	11	85	74	5	0	20	1.01
1478847--1478904	23	2.6	23	74	20	68	58	5	3	32	1.37
1478698--1478851	80	1.9	84	86	9	228	63	4	2	29	1.27
1478837--1478896	20	2.8	20	80	14	59	53	5	3	38	1.39
1479219--1479281	22	2.9	21	79	6	72	44	0	0	55	0.99
1480443--1480499	2	29.0	2	89	3	89	47	1	1	49	1.22
1480598--1480630	2	16.5	2	93	0	57	48	0	0	51	1.00
1483957--1484040	25	3.2	25	68	15	80	45	1	10	42	1.46
1484307--1484362	24	2.2	24	84	6	67	32	1	1	64	1.14
1484653--1484697	3	15.0	3	100	0	90	66	0	0	33	0.92
1484924--1484954	9	3.4	9	100	0	62	64	0	0	35	0.94
1485028--1485069	21	2.0	21	85	4	57	38	0	7	54	1.28
1485611--1485668	16	3.2	19	76	18	54	31	3	0	65	1.09
1485638--1485680	21	2.1	21	82	4	52	39	2	0	58	1.11
1485789--1485841	24	2.3	22	87	9	79	49	1	1	47	1.23
1485797--1485840	10	4.0	10	81	18	52	50	0	2	47	1.13
1485830--1485915	28	3.2	26	80	9	100	41	1	1	55	1.14
1486299--1486361	29	2.2	29	82	5	74	46	7	4	41	1.54
1490114--1490160	6	7.7	6	84	13	53	46	2	2	48	1.25
1490114--1490160	11	3.8	12	76	23	53	46	2	2	48	1.25
1490355--1490414	28	2.1	29	84	12	79	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1490359--1490427	28	2.4	28	76	9	68	50	0	0	49	1.00
1490417--1490469	25	2.1	25	83	13	65	52	0	0	47	1.00
1490645--1490747	48	2.2	45	83	13	122	39	2	0	56	1.21
1490663--1490747	26	3.4	25	76	15	88	42	2	1	54	1.21
1491188--1491238	25	2.0	25	92	0	84	43	15	7	33	1.76
1491555--1491600	20	2.4	19	82	13	58	28	6	2	63	1.31
1491632--1491665	18	1.9	18	88	5	52	41	0	5	52	1.25
1491792--1491840	24	2.0	24	84	8	62	53	0	0	46	1.00
1491795--1491848	22	2.5	20	76	21	63	51	0	0	48	1.00
1495481--1495537	18	3.1	18	87	2	69	43	3	0	52	1.18
1497537--1497570	2	17.0	2	93	0	59	47	0	0	52	1.00
1498501--1498538	2	19.0	2	94	0	67	47	0	0	52	1.00
1498900--1498948	24	2.0	24	92	0	80	46	6	12	34	1.66
1501158--1501184	2	13.5	2	100	0	54	51	0	0	48	1.00
1501709--1501743	16	2.2	16	90	10	54	60	0	0	40	0.97
1505985--1506017	17	1.9	18	88	11	52	42	0	3	54	1.15
1506654--1506694	2	21.0	2	95	5	75	51	0	0	48	1.00
1509023--1509071	24	2.0	25	88	11	75	48	2	0	48	1.12
1509831--1509899	23	2.9	24	72	20	63	62	14	4	18	1.48
1510192--1510284	5	17.8	5	75	10	53	6	16	2	75	1.11
1510235--1510269	16	2.2	16	89	0	52	0	22	0	77	0.78
1514781--1514811	15	2.1	15	93	0	53	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516362--1516401	13	3.2	13	82	7	55	55	2	0	42	1.13
1516825--1516851	2	13.5	2	100	0	54	51	0	0	48	1.00
1517535--1517571	2	18.5	2	100	0	74	0	48	0	51	1.00
1523310--1523356	16	2.8	17	84	12	62	53	2	0	44	1.12
1525163--1525221	18	3.1	19	77	17	52	50	0	0	49	1.00
1525172--1525221	21	2.6	19	87	9	66	50	0	0	50	1.00
1525401--1525471	35	2.0	36	83	8	92	47	1	0	50	1.09
1525431--1525464	18	2.0	16	88	11	50	47	0	0	52	1.00
1525447--1525495	10	4.9	10	78	7	55	48	0	0	51	1.00
1525448--1525495	15	3.2	15	85	5	62	50	0	0	50	1.00
1525423--1525500	40	1.9	41	87	7	115	51	0	0	48	1.00
1525687--1525735	22	2.3	22	85	3	64	53	0	0	46	1.00
1525694--1525742	22	2.2	22	82	7	55	59	0	0	40	0.98
1525751--1525785	17	2.1	17	88	0	52	48	2	0	48	1.16
1525749--1525786	9	4.3	9	80	6	51	47	2	0	50	1.15
1525831--1525876	12	3.5	13	78	21	51	30	0	0	69	0.89
1525842--1525878	6	6.5	6	87	6	51	32	0	0	67	0.91
1528872--1528911	20	2.0	20	100	0	80	35	5	10	50	1.58
1530297--1530325	14	2.0	15	93	6	51	3	13	34	48	1.60
1531775--1531835	18	3.3	18	81	4	86	37	0	0	62	0.96
1531774--1531855	37	2.2	37	97	0	155	39	0	0	60	0.96
1531774--1531875	37	2.8	37	89	2	118	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)
1532064--1532117	22	2.6	21	80	13	58	37	0	0	62	0.95
1537409--1537516	12	9.3	11	78	15	85	61	1	0	36	1.13
1537417--1537484	5	12.8	5	86	9	75	60	1	0	38	1.06
1537405--1537505	6	17.0	6	75	12	77	61	0	0	36	1.09
1537405--1537505	17	5.7	17	76	13	89	61	0	0	36	1.09
1539758--1540161	82	4.9	82	85	1	551	39	27	9	23	1.86
1547179--1547217	2	19.5	2	89	0	60	43	0	0	56	0.99
1547433--1547499	20	3.5	20	76	11	59	37	1	1	59	1.16
1547994--1548073	18	4.4	17	72	20	63	52	0	1	46	1.08
1547996--1548070	29	2.7	29	73	19	77	53	0	1	45	1.08
1548501--1548541	5	8.2	5	91	0	55	46	0	0	53	1.00
1548987--1549023	3	12.3	3	94	0	65	0	32	2	64	1.07
1550936--1550995	19	3.1	19	71	20	52	33	0	3	63	1.11
1552720--1552746	2	13.5	2	100	0	54	51	0	0	48	1.00
1553313--1553343	14	2.2	14	100	0	62	48	0	0	51	1.00
1556361--1556436	33	2.3	33	80	8	84	44	2	1	51	1.23
1562386--1562556	37	4.8	37	69	20	96	45	0	1	52	1.15
1562422--1562679	15	16.6	15	70	17	93	40	1	4	53	1.31
1562386--1562445	24	2.5	23	83	5	66	48	0	0	51	1.00
1562418--1562462	16	2.8	16	79	3	54	42	0	0	57	0.98
1562446--1562545	22	4.2	22	68	19	58	43	1	2	54	1.18
1562427--1562547	22	5.1	24	69	25	55	44	0	1	52	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562386--1562588	52	3.8	53	77	13	157	44	0	1	52	1.19
1562618--1562679	16	3.9	16	82	4	81	37	0	1	61	1.06
1562628--1562696	31	2.2	30	82	10	77	39	2	1	56	1.23
1563523--1563548	9	2.9	9	100	0	52	42	0	0	57	0.98
1567660--1567684	13	1.9	13	100	0	50	28	24	24	24	2.00
1569285--1569325	20	2.0	21	85	4	57	51	0	0	48	1.00
1569462--1569504	14	2.8	16	86	10	63	46	2	0	51	1.13
1569256--1569657	198	2.0	200	92	0	673	48	2	3	45	1.32
1570555--1570625	24	2.8	25	76	24	78	49	0	47	2	1.16
1574235--1574274	17	2.2	19	86	8	57	35	0	0	65	0.93

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