genome.fa.s329.2.7.7.80.10.50.1000.10.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: Scaffold329
Parameters: 2 7 7 80 10 50 1000
Length:  4121247

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   

This is table  10  of  25  ( 2930 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)
1504544--1504598	14	3.9	14	77	11	58	40	10	21	27	1.87
1504460--1504638	84	2.1	84	91	3	290	44	12	21	21	1.85
1504614--1504663	17	3.0	17	88	2	75	46	10	26	18	1.80
1504841--1504887	23	2.0	23	84	8	60	36	2	2	59	1.21
1504874--1504915	22	2.0	21	85	4	57	21	2	4	71	1.16
1506050--1506097	21	2.3	21	96	0	87	31	6	29	33	1.82
1512538--1512576	18	2.1	19	86	13	55	66	5	5	23	1.32
1513872--1513906	6	5.8	6	96	0	61	45	0	0	54	0.99
1514151--1514190	18	2.2	18	86	0	53	10	65	5	20	1.42
1514231--1514292	21	2.9	22	80	7	74	17	62	6	12	1.50
1514249--1514295	18	2.6	18	82	0	58	17	65	6	10	1.43
1516367--1516409	2	21.5	2	100	0	86	51	0	0	48	1.00
1516926--1516968	16	2.6	17	78	7	54	46	0	0	53	1.00
1517233--1517295	24	2.7	24	80	9	78	36	3	0	60	1.13
1521156--1521212	30	1.9	30	100	0	114	42	15	14	28	1.86
1522663--1522697	3	11.7	3	100	0	70	34	0	0	65	0.93
1522863--1522897	6	5.8	6	100	0	70	48	0	0	51	1.00
1523139--1523179	21	2.0	21	90	0	64	7	65	7	19	1.41
1523318--1523381	24	2.7	23	77	18	67	26	42	12	18	1.86
1523389--1523440	21	2.5	21	87	6	70	9	71	5	13	1.30
1523457--1523509	12	4.4	12	73	0	52	33	39	13	13	1.83
1524814--1524912	30	3.4	28	76	16	85	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)
1524856--1524928	22	3.4	23	77	22	72	41	0	0	58	0.98
1524988--1525041	20	2.5	21	82	14	58	61	7	0	31	1.24
1524997--1525035	18	2.2	17	86	4	51	64	10	0	25	1.25
1526814--1526875	24	2.7	21	75	18	61	66	3	0	30	1.08
1526825--1526878	24	2.2	24	90	6	83	66	1	0	31	1.02
1526801--1526896	43	2.3	42	80	12	99	63	3	0	33	1.10
1526845--1526884	8	5.0	8	82	11	55	65	0	0	35	0.93
1527368--1527413	19	2.3	20	89	10	69	63	2	0	34	1.07
1528240--1528388	77	1.9	77	94	0	262	33	11	8	46	1.69
1529568--1529605	20	1.9	20	89	10	60	26	2	15	55	1.54
1529570--1529612	19	2.2	20	84	12	54	27	4	13	53	1.60
1530419--1530499	32	2.6	32	88	2	119	25	13	14	45	1.82
1540018--1540059	16	2.6	16	85	10	59	57	16	4	21	1.58
1541902--1541930	12	2.4	12	100	0	58	93	0	6	0	0.36
1552494--1552521	2	14.0	2	100	0	56	50	0	50	0	1.00
1552723--1552770	16	3.1	15	80	16	53	54	0	0	45	0.99
1552859--1552929	21	3.2	21	82	9	79	61	0	0	38	0.96
1552892--1552929	13	2.9	13	88	7	51	63	0	0	36	0.95
1552906--1553056	23	6.6	24	69	23	78	51	0	1	46	1.14
1553012--1553057	23	2.0	22	95	4	83	54	0	0	45	0.99
1552943--1553056	29	3.9	30	77	5	99	50	0	0	47	1.13
1553362--1553414	18	2.7	19	85	8	63	37	0	1	60	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556503--1556784	79	3.6	78	83	3	343	32	17	25	25	1.97
1556739--1556812	28	2.6	28	93	0	121	24	21	31	22	1.99
1556664--1556887	103	2.1	106	85	2	301	32	16	25	25	1.97
1556874--1556989	51	2.3	51	84	3	153	27	14	29	28	1.95
1556926--1557128	79	2.6	79	85	1	264	32	14	26	27	1.95
1556767--1557198	209	2.1	205	90	2	677	31	15	26	26	1.95
1557115--1557233	51	2.3	51	79	0	121	37	10	22	28	1.88
1557008--1557430	181	2.3	181	88	0	623	33	12	26	27	1.92
1556572--1557379	390	2.1	386	83	6	995	33	14	25	26	1.94
1556799--1557379	130	4.5	128	69	11	385	32	13	26	27	1.94
1557264--1557443	51	3.5	51	79	3	177	32	11	27	28	1.91
1559861--1559923	19	3.7	18	76	24	73	36	17	12	33	1.88
1559854--1559923	32	2.2	32	97	0	131	37	17	12	32	1.87
1559880--1559904	13	1.9	13	100	0	50	32	16	16	36	1.90
1559912--1559965	21	2.6	21	100	0	108	29	14	14	40	1.86
1560429--1560764	58	5.8	57	73	7	243	48	13	9	27	1.74
1560355--1560765	175	2.4	177	78	8	441	48	13	9	27	1.75
1562972--1563747	60	13.3	60	84	5	867	27	26	19	26	1.99
1562992--1563747	121	6.4	117	85	6	884	26	26	19	26	1.99
1562972--1563747	55	13.3	55	83	10	731	27	26	19	26	1.99
1563840--1563936	42	2.3	42	77	8	101	17	28	10	43	1.82
1564441--1564484	16	2.6	18	85	10	65	84	2	0	13	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564604--1564636	13	2.5	13	95	0	57	33	12	18	36	1.88
1564680--1564705	13	2.0	13	100	0	52	30	15	15	38	1.88
1564660--1564726	34	2.0	33	88	2	98	25	14	13	46	1.82
1565810--1565836	12	2.2	12	100	0	54	18	7	18	55	1.65
1567222--1567246	13	1.9	13	100	0	50	36	16	16	32	1.90
1567202--1567265	32	2.0	33	93	3	112	35	12	18	32	1.89
1567201--1567283	19	4.6	19	80	18	97	33	12	18	36	1.87
1570413--1570547	51	2.6	52	80	10	159	30	23	11	34	1.90
1570478--1570629	78	1.9	80	87	2	227	29	26	13	29	1.94
1570558--1570730	52	3.3	52	85	4	233	30	26	11	32	1.91
1570423--1570761	182	1.9	183	88	3	513	29	25	12	32	1.92
1573390--1573456	37	1.9	35	88	11	102	29	25	11	32	1.92
1573915--1573940	13	2.0	13	100	0	52	30	15	15	38	1.88
1574001--1574073	20	3.6	20	81	3	101	31	19	13	35	1.91
1573979--1574073	41	2.3	42	94	1	165	30	17	12	38	1.87
1574690--1574733	21	2.1	21	83	8	54	25	31	4	38	1.76
1575902--1575926	13	1.9	13	100	0	50	32	16	16	36	1.90
1578707--1578773	37	1.9	35	88	11	102	29	25	11	32	1.92
1579232--1579257	13	2.0	13	100	0	52	30	15	15	38	1.88
1579318--1579390	20	3.6	20	81	3	101	31	19	13	35	1.91
1579296--1579390	41	2.3	42	94	1	165	30	17	12	38	1.87
1581197--1581233	17	2.2	17	90	0	56	48	10	0	40	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1581237--1581278	16	2.6	16	88	0	57	33	11	11	42	1.78
1582547--1582604	15	3.9	15	74	14	50	56	0	0	43	0.99
1582887--1582922	2	18.0	2	100	0	72	50	0	0	50	1.00
1583181--1583217	18	2.2	18	90	9	60	54	0	24	21	1.45
1583400--1583433	13	2.4	14	90	9	52	23	0	2	73	0.97
1583627--1583668	18	2.3	18	95	0	75	40	9	0	50	1.35
1584667--1584703	19	1.9	20	88	5	58	45	0	0	54	1.00
1585035--1585077	21	2.0	21	82	8	52	48	0	4	46	1.22
1588667--1588712	23	2.0	23	87	4	67	56	0	0	43	0.99
1589270--1589328	28	2.1	29	87	3	84	35	0	11	52	1.38
1592426--1592471	11	4.4	10	78	10	56	80	2	2	15	0.91
1592426--1592471	21	2.2	21	84	7	58	80	2	2	15	0.91
1606454--1606636	62	3.0	61	84	4	242	27	27	17	27	1.98
1606620--1606660	19	2.2	19	100	0	82	17	26	29	26	1.97
1606560--1606715	81	1.9	81	89	7	246	25	26	21	26	2.00
1606640--1607055	62	6.7	63	86	4	569	25	25	21	28	1.99
1606501--1606784	143	2.0	143	88	2	419	24	26	21	28	1.99
1606640--1607047	187	2.2	185	88	3	613	25	25	20	28	1.99
1607089--1607200	33	3.5	32	73	7	93	28	29	15	26	1.96
1608342--1608366	13	1.9	13	100	0	50	64	0	36	0	0.94
1614658--1614700	18	2.5	16	75	17	50	32	0	0	67	0.91
1614961--1615008	18	2.5	19	73	6	53	45	2	0	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615679--1615740	13	5.6	11	69	27	51	67	1	1	29	1.09
1615670--1616190	270	1.9	270	99	0	1033	50	7	6	35	1.57
1616716--1616753	19	2.0	19	85	10	51	39	2	0	57	1.12
1617624--1617673	17	2.9	17	80	14	66	48	2	0	50	1.12
1617753--1617808	27	2.1	26	83	9	69	50	0	1	48	1.11
1617766--1617812	22	2.2	21	78	17	53	48	0	2	48	1.13
1622312--1622381	34	2.1	34	94	0	122	17	20	10	52	1.72
1623281--1623385	38	2.8	38	98	0	201	36	25	5	32	1.80
1623095--1623505	220	1.9	221	97	0	788	33	22	9	35	1.85
1628913--1628937	4	6.2	4	100	0	50	24	0	0	76	0.80

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