genome.fa.s48.2.7.7.80.10.50.1000.10.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  10  of  27  ( 3212 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)
1364678--1364717	20	2.0	20	85	9	55	60	0	0	40	0.97
1364732--1364786	20	2.8	20	73	18	51	45	1	0	52	1.11
1364834--1364875	17	2.3	19	84	12	61	30	0	2	66	1.04
1364837--1364875	20	2.0	20	85	10	53	28	0	2	69	1.02
1368907--1368953	24	2.0	24	88	12	71	53	0	0	46	1.00
1370488--1370573	24	3.3	24	69	25	59	45	0	1	53	1.07
1372841--1372866	2	13.0	2	100	0	52	0	50	0	50	1.00
1381715--1381765	19	2.7	20	82	8	54	43	0	1	54	1.11
1383672--1383732	17	3.4	18	73	10	63	77	0	9	13	1.00
1383672--1383732	18	3.5	17	77	6	68	77	0	9	13	1.00
1384307--1384358	14	3.6	15	75	17	56	55	0	0	44	0.99
1385186--1385232	19	2.4	21	79	17	64	70	6	0	23	1.10
1385314--1385359	13	3.5	13	78	0	56	76	4	0	19	0.96
1385743--1385787	23	2.0	21	84	16	56	51	0	0	48	1.00
1387674--1387712	18	2.1	20	86	13	57	30	2	25	41	1.69
1388367--1388401	16	2.2	16	100	0	70	34	25	11	28	1.91
1392923--1392959	2	18.5	2	100	0	74	48	0	0	51	1.00
1402088--1402136	25	2.0	25	84	8	64	53	2	4	40	1.32
1402075--1402177	5	20.0	5	71	16	52	54	1	3	39	1.30
1404046--1404092	23	2.0	25	83	8	62	48	0	0	51	1.00
1404009--1404079	28	2.5	29	80	8	85	47	0	0	52	1.00
1404358--1404425	25	2.7	25	80	17	86	51	0	1	47	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1404366--1404438	23	3.4	22	78	16	82	52	0	1	46	1.09
1404337--1404420	19	4.1	19	70	19	60	51	0	1	47	1.08
1404871--1404934	7	9.0	7	79	17	62	45	0	0	54	0.99
1404995--1405050	17	3.3	17	77	5	51	30	1	0	67	1.01
1405007--1405061	14	4.1	14	73	17	53	29	0	0	70	0.87
1404987--1405063	23	3.3	23	71	16	61	31	1	0	67	0.99
1404898--1405437	273	2.0	271	91	1	866	36	3	7	52	1.48
1405268--1405320	17	3.1	17	78	5	54	26	0	1	71	0.96
1413161--1413223	22	2.8	22	75	18	58	53	3	6	36	1.42
1413814--1413872	12	4.8	12	78	14	50	66	0	1	32	1.02
1413846--1413933	6	15.2	6	73	19	55	63	0	0	36	0.95
1413846--1413933	16	5.4	17	71	21	73	63	0	0	36	0.95
1414513--1414544	3	10.7	3	93	0	55	0	34	3	62	1.11
1418163--1418220	30	1.9	30	86	6	82	56	5	3	34	1.38
1421096--1421130	2	17.5	2	100	0	70	51	0	0	48	1.00
1421173--1421227	22	2.6	20	81	16	58	36	0	0	63	0.95
1422854--1422901	18	2.6	18	87	12	62	35	2	0	62	1.07
1422848--1422901	20	2.7	21	77	19	60	35	1	0	62	1.06
1422855--1422933	34	2.3	35	84	4	99	40	1	0	58	1.06
1424265--1424295	16	1.9	16	93	0	53	45	0	0	54	0.99
1425340--1425373	3	11.3	3	100	0	68	64	0	0	35	0.94
1434626--1434663	19	2.1	19	85	9	53	2	13	0	84	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1435125--1435155	16	1.9	16	93	0	53	45	19	0	35	1.51
1436227--1436251	7	3.6	7	100	0	50	16	0	0	84	0.63
1436265--1436311	18	2.6	18	80	10	51	34	2	0	63	1.06
1437283--1437321	17	2.4	17	87	8	55	43	7	0	48	1.31
1439702--1439733	13	2.5	13	95	5	57	15	0	0	84	0.63
1439702--1439733	6	5.2	6	92	7	55	15	0	0	84	0.63
1440062--1440161	43	2.4	42	75	18	100	53	3	0	44	1.16
1441386--1441431	19	2.4	19	78	7	58	50	0	2	47	1.13
1441392--1441428	15	2.6	15	87	8	51	51	0	2	45	1.15
1442481--1442552	36	2.0	35	84	12	94	38	0	0	61	0.96
1443089--1443213	15	7.6	16	68	20	62	41	0	3	55	1.16
1443089--1443148	30	2.0	30	83	6	77	40	0	1	58	1.08
1443968--1444004	19	2.1	19	85	10	51	64	0	0	35	0.94
1444495--1444534	21	1.9	21	90	10	64	62	0	2	35	1.09
1444949--1445006	28	2.0	30	83	12	77	55	0	3	41	1.17
1449596--1449628	2	16.5	2	100	0	66	51	0	0	48	1.00
1449628--1449653	2	13.0	2	100	0	52	50	0	50	0	1.00
1457456--1457492	19	1.9	19	88	0	56	37	0	0	62	0.96
1457463--1457492	10	3.1	10	90	9	53	30	0	0	70	0.88
1457671--1457707	2	18.5	2	100	0	74	51	0	0	48	1.00
1458859--1458903	15	3.1	15	81	15	58	57	0	0	42	0.98
1458852--1458903	29	1.9	25	85	14	68	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1460452--1460494	16	2.7	16	77	0	50	39	0	2	58	1.11
1461302--1461344	22	2.0	22	85	0	59	44	0	2	53	1.13
1461511--1461541	15	2.0	16	93	6	55	45	0	0	54	0.99
1462127--1462153	5	5.4	5	100	0	54	55	0	0	44	0.99
1462275--1462304	2	15.0	2	100	0	60	50	0	0	50	1.00
1462635--1462685	21	2.4	21	83	9	59	49	0	0	50	1.00
1463299--1463576	94	3.0	93	89	4	407	36	8	13	42	1.74
1472596--1472627	7	4.6	7	96	0	55	15	3	0	81	0.82
1473674--1473712	3	13.0	3	88	0	60	33	2	2	61	1.23
1474067--1474097	3	10.3	3	100	0	62	32	0	0	67	0.91
1474585--1474646	30	2.1	30	84	6	81	32	1	3	62	1.20
1475282--1475324	21	2.0	23	90	9	72	41	0	0	58	0.98
1475280--1475344	33	1.9	32	84	9	85	46	0	0	53	1.00
1476279--1476341	11	6.2	11	71	22	57	34	0	1	63	1.04
1476320--1476355	18	1.9	19	88	5	56	41	0	0	58	0.98
1477283--1477315	9	3.3	10	87	12	50	36	0	0	63	0.95
1478173--1478223	21	2.4	21	76	3	57	37	0	1	60	1.08
1478955--1478979	8	3.1	8	100	0	50	52	0	0	48	1.00
1479986--1480012	6	4.5	6	100	0	54	70	29	0	0	0.88
1481578--1481611	2	17.5	2	93	6	61	50	0	0	50	1.00
1481980--1482006	2	13.5	2	100	0	54	48	0	0	51	1.00
1487122--1487167	19	2.3	20	85	7	58	39	4	0	56	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1488341--1488386	23	2.0	24	86	4	67	41	0	0	58	0.98
1494764--1494801	10	3.9	10	82	6	51	63	0	2	34	1.09
1494819--1494868	26	1.9	27	88	8	77	54	2	2	42	1.23
1494832--1494901	17	4.2	16	72	15	54	50	1	4	44	1.30
1495930--1495973	14	3.2	13	84	12	52	56	0	2	40	1.11
1495956--1496021	31	2.1	32	78	13	75	36	0	3	60	1.12
1496778--1496827	20	2.5	20	90	6	75	36	22	8	34	1.83
1496856--1496911	19	2.8	20	86	5	87	37	14	16	32	1.88
1499130--1499177	21	2.4	19	80	19	53	45	4	16	33	1.67
1499290--1499338	13	3.8	13	88	0	71	34	14	16	34	1.89
1505477--1505502	12	2.2	12	100	0	52	34	19	15	30	1.93
1505458--1505520	32	2.0	32	90	6	101	31	15	14	38	1.88
1505395--1505754	185	2.0	179	95	3	639	30	15	15	39	1.88
1505736--1505782	20	2.4	19	82	3	58	36	12	17	34	1.87
1505736--1505791	19	2.9	19	86	2	76	37	10	17	33	1.85
1506013--1506055	21	2.1	20	91	4	68	44	0	0	55	0.99
1507906--1507942	17	2.2	17	90	0	56	27	0	0	72	0.84
1509467--1509493	3	9.0	3	100	0	54	33	0	33	33	1.58
1515588--1515631	19	2.5	18	86	13	65	50	0	0	50	1.00
1515615--1515670	27	2.1	27	86	6	78	58	0	3	37	1.15
1515661--1515689	14	2.0	15	93	6	51	58	0	0	41	0.98
1516034--1516086	22	2.3	23	90	3	81	52	7	1	37	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1519354--1519401	22	2.3	20	75	7	51	50	2	0	47	1.12
1522359--1522422	21	2.8	23	81	11	87	6	20	31	42	1.77
1525043--1525071	2	14.5	2	100	0	58	51	0	0	48	1.00
1525705--1525737	2	16.5	2	100	0	66	48	0	0	51	1.00
1528391--1528448	9	6.1	10	80	17	70	60	0	0	39	0.97
1528403--1528471	18	3.8	18	84	3	93	59	0	0	40	0.97
1528625--1528685	21	2.9	21	82	7	61	52	3	0	44	1.17
1531208--1531241	17	1.9	18	88	5	52	26	0	0	73	0.83
1531398--1531437	2	20.5	2	89	5	64	50	2	0	47	1.14
1537411--1537439	2	15.0	2	92	7	51	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27