genome.fa.s65.2.7.7.80.10.50.1000.7.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: Scaffold65
Parameters: 2 7 7 80 10 50 1000
Length:  3097370

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

This is table  7  of  17  ( 1956 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)
1493123--1493154	11	2.8	12	86	13	50	43	0	3	53	1.16
1493730--1493796	18	3.7	18	75	14	59	62	1	1	34	1.13
1493837--1493903	30	2.2	28	78	14	71	35	2	0	61	1.12
1493906--1493965	29	2.1	29	87	3	86	51	3	0	45	1.17
1494371--1494442	30	2.4	30	77	9	76	43	0	1	55	1.08
1494458--1494543	34	2.5	34	79	9	86	47	0	2	50	1.14
1494482--1494547	34	2.0	33	84	3	87	51	0	1	46	1.10
1494645--1494713	33	2.1	33	100	0	138	43	5	2	47	1.42
1495502--1495545	17	2.6	18	85	10	65	43	0	4	52	1.22
1495621--1495738	31	3.8	29	75	18	112	37	4	3	55	1.36
1495609--1495737	64	2.0	65	98	1	251	37	4	4	53	1.43
1495889--1495939	25	2.0	25	92	0	84	23	11	11	52	1.70
1499188--1499243	29	1.9	29	85	7	78	23	3	8	64	1.38
1499342--1499385	23	1.9	23	95	0	79	27	0	2	70	0.99
1499782--1499821	21	1.9	21	90	10	64	32	2	0	65	1.06
1499789--1499835	13	3.6	13	76	18	53	29	4	0	65	1.11
1500165--1500213	25	2.0	25	84	8	64	32	4	4	59	1.35
1500144--1500213	29	2.5	30	80	17	80	37	2	2	57	1.29
1501059--1501152	30	3.1	29	73	19	86	46	2	5	45	1.37
1501827--1501867	18	2.3	18	83	8	57	46	0	0	53	1.00
1502878--1502914	2	19.0	2	94	5	67	48	0	0	51	1.00
1508030--1508089	30	2.0	30	83	0	75	25	8	38	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1511070--1511097	2	14.0	2	100	0	56	0	50	0	50	1.00
1511146--1511171	2	13.0	2	100	0	52	0	50	0	50	1.00
1511835--1511860	12	2.2	12	100	0	52	38	23	7	30	1.83
1513971--1514141	90	1.9	90	88	0	261	30	20	20	28	1.98
1526616--1526657	2	21.0	2	100	0	84	0	50	0	50	1.00
1527781--1527845	19	3.4	19	73	14	62	41	4	0	53	1.21
1532801--1532835	14	2.5	14	90	0	61	31	28	31	8	1.87
1537522--1537551	15	2.1	14	93	6	51	0	10	0	90	0.47
1538272--1538348	40	1.9	40	100	0	154	32	27	10	29	1.90
1539931--1539972	3	14.0	3	100	0	84	33	0	0	66	0.92
1540107--1540138	3	10.7	3	100	0	64	68	0	31	0	0.90
1541413--1541460	7	6.9	7	97	0	87	16	10	58	14	1.63
1541411--1541471	14	4.4	14	91	0	86	22	8	54	14	1.67
1543972--1544001	2	15.0	2	100	0	60	50	0	0	50	1.00
1544509--1544548	13	3.1	14	79	13	50	55	0	0	45	0.99
1544515--1544595	18	4.1	20	77	15	60	46	0	0	53	1.00
1544537--1544612	22	3.3	22	77	22	77	44	0	0	55	0.99
1545382--1545410	13	2.1	14	93	6	51	44	0	0	55	0.99
1545415--1545444	2	15.0	2	92	0	51	46	0	3	50	1.18
1550158--1550196	18	2.2	18	86	9	53	15	20	0	64	1.30
1551413--1551446	10	3.3	10	84	8	50	32	2	0	64	1.08
1554428--1554457	3	10.0	3	100	0	60	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554591--1554635	22	2.2	20	78	17	56	17	8	33	40	1.81
1554597--1554640	22	2.0	22	100	0	88	18	9	36	36	1.82
1554643--1554673	2	15.5	2	100	0	62	51	0	0	48	1.00
1555573--1555638	20	3.3	20	78	0	78	34	13	12	39	1.82
1569299--1569353	17	3.1	18	81	7	58	50	0	0	49	1.00
1569287--1569331	22	2.1	21	83	4	54	51	0	0	48	1.00
1569319--1569361	19	2.4	19	84	7	54	48	0	0	51	1.00
1569335--1569394	29	2.0	30	81	9	70	43	0	0	56	0.99
1570209--1570255	18	2.5	18	82	6	58	46	6	4	42	1.48
1571902--1571942	2	20.5	2	100	0	82	48	0	0	51	1.00
1573629--1573689	30	2.1	29	90	3	95	47	0	1	50	1.10
1573846--1573878	16	2.1	16	100	0	66	48	0	0	51	1.00
1574686--1574742	28	2.0	28	83	6	71	54	0	1	43	1.10
1575986--1576020	2	17.5	2	100	0	70	51	0	0	48	1.00
1576539--1576584	2	23.0	2	90	0	74	47	2	2	47	1.26
1576533--1576575	10	4.3	10	93	0	59	51	4	2	41	1.35
1577387--1577477	45	2.0	45	95	0	164	29	23	13	34	1.92
1582545--1582584	2	20.0	2	100	0	80	0	50	0	50	1.00
1584120--1584153	2	17.0	2	100	0	68	50	0	0	50	1.00
1589363--1589470	25	4.4	25	68	23	77	53	1	0	43	1.17
1589349--1589483	72	1.9	72	88	0	207	54	3	2	40	1.31
1597765--1597794	2	15.0	2	100	0	60	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)
1598374--1598413	21	1.9	21	90	10	64	60	0	0	40	0.97
1609162--1609215	20	2.8	20	88	2	74	62	3	3	29	1.29
1610708--1610741	11	3.0	11	91	4	50	32	0	0	67	0.91
1611237--1611276	18	2.2	19	86	4	55	35	0	0	65	0.93
1613857--1613891	2	18.0	2	88	5	54	2	48	0	48	1.16
1617426--1617453	2	14.0	2	100	0	56	50	0	50	0	1.00
1618583--1618661	37	2.2	34	77	6	86	34	0	3	62	1.14
1619049--1619094	22	2.1	21	84	4	56	36	4	4	54	1.40
1619820--1619869	21	2.4	21	90	6	75	58	0	0	42	0.98
1627361--1627392	2	16.0	2	100	0	64	0	50	0	50	1.00
1629153--1629201	25	2.0	25	84	11	66	44	0	2	53	1.12
1637433--1637473	3	13.7	3	100	0	82	34	0	0	65	0.93
1638918--1638966	25	2.0	25	84	8	64	48	0	0	51	1.00
1639605--1639639	2	17.5	2	87	0	52	57	0	0	42	0.99
1640288--1640332	2	22.5	2	100	0	90	51	0	0	48	1.00
1644071--1644170	37	2.8	37	76	17	111	39	0	0	61	0.96
1644075--1644157	29	3.1	28	78	13	77	37	0	0	62	0.95
1644110--1644166	25	2.3	24	78	3	69	33	0	0	66	0.92
1644071--1644157	18	4.9	18	76	17	83	37	0	0	62	0.96
1644082--1644168	19	4.7	18	67	14	52	37	0	0	62	0.96
1646257--1646299	9	5.0	8	83	13	50	34	4	0	60	1.17
1655890--1655938	24	2.0	24	84	4	62	40	4	4	51	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656826--1656850	2	12.5	2	100	0	50	52	0	0	48	1.00
1660410--1660440	16	2.0	16	93	6	55	6	9	0	83	0.79
1665655--1665695	20	2.0	20	85	0	55	58	31	2	7	1.38
1668657--1668690	17	2.0	17	88	0	50	82	5	8	2	0.93
1671107--1671141	12	2.9	12	91	0	52	68	5	2	22	1.24
1673424--1673462	5	8.0	5	88	5	62	0	20	0	79	0.73
1676234--1676263	7	4.3	7	100	0	60	13	0	0	86	0.57
1677066--1677152	35	2.6	34	77	12	81	29	2	3	64	1.22
1677321--1677365	19	2.3	20	82	17	60	73	2	22	2	1.05
1677320--1677377	22	2.6	22	71	15	57	74	1	22	1	1.01
1677413--1677465	19	2.8	18	75	11	52	35	1	0	62	1.06
1677013--1677600	317	1.9	318	84	6	809	40	3	8	47	1.51
1677397--1677477	38	2.2	36	80	12	94	32	1	2	64	1.15
1677397--1677480	37	2.3	36	78	13	91	33	1	2	63	1.15
1677686--1677745	8	7.1	8	78	10	66	80	0	16	3	0.85
1677686--1677727	12	3.7	11	79	14	50	83	0	14	2	0.75
1677686--1677745	17	3.5	17	80	11	61	80	0	16	3	0.85
1677685--1677745	25	2.4	26	84	13	74	78	0	18	3	0.88
1679106--1679149	12	3.7	12	84	0	61	38	0	0	61	0.96
1679106--1679144	8	4.9	8	90	0	51	38	0	0	61	0.96
1688331--1688374	14	3.2	14	77	6	54	63	0	0	36	0.95
1688665--1688711	19	2.3	21	85	7	62	38	0	2	59	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1688655--1688708	9	5.5	10	75	18	51	37	1	3	57	1.27
1689493--1689550	13	4.4	13	75	12	55	62	1	0	36	1.06
1689484--1689549	27	2.5	27	78	9	66	59	1	0	39	1.07
1689748--1689773	12	2.2	12	100	0	52	42	0	0	57	0.98
1689958--1690007	20	2.5	20	78	12	59	54	0	2	44	1.11
1690075--1690108	17	2.0	17	88	11	52	64	0	2	32	1.08
1691137--1691474	165	2.0	170	86	6	474	20	16	18	44	1.86
1694241--1694292	26	2.0	26	100	0	104	23	23	7	46	1.78
1698910--1698952	8	5.5	8	94	2	70	48	9	0	41	1.35
1698910--1698952	2	21.0	2	80	4	50	48	9	0	41	1.35

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