genome.fa.s92.2.7.7.80.10.50.1000.13.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: Scaffold92
Parameters: 2 7 7 80 10 50 1000
Length:  2337674

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

This is table  13  of  19  ( 2187 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)
1582575--1582625	3	17.0	3	100	0	102	33	0	0	66	0.92
1583172--1583209	20	2.0	20	90	10	62	39	0	5	55	1.23
1583339--1583382	20	2.2	20	84	11	56	72	2	6	18	1.17
1583451--1583522	2	38.5	2	69	22	50	45	1	1	51	1.18
1584256--1584308	2	26.5	2	92	0	88	49	1	0	49	1.12
1589859--1589941	29	2.8	29	80	5	87	61	4	1	32	1.25
1591056--1591090	14	2.5	14	90	9	54	60	0	0	40	0.97
1591258--1591330	7	9.5	8	71	22	50	64	0	0	35	0.94
1591309--1591374	31	2.0	34	88	8	102	60	0	1	37	1.06
1591656--1591682	14	1.9	14	100	0	54	66	0	7	25	1.17
1593338--1593374	16	2.2	18	85	9	51	48	5	2	43	1.40
1596165--1596208	20	2.2	20	84	4	54	45	0	2	52	1.13
1596225--1596277	27	2.0	27	85	7	72	30	0	1	67	1.01
1596233--1596280	18	2.7	18	78	18	55	27	0	2	70	0.98
1596236--1596289	27	2.0	26	89	3	81	29	0	1	68	1.00
1596757--1596824	24	2.8	24	80	10	68	60	0	2	36	1.12
1596808--1596933	27	4.5	27	73	14	96	53	0	0	46	1.00
1596846--1596883	20	1.9	20	88	0	58	47	0	0	52	1.00
1596767--1596945	11	16.6	11	69	17	76	56	0	0	42	1.07
1596886--1596930	6	8.0	6	85	9	60	62	0	0	37	0.96
1597049--1597093	20	2.3	20	92	3	74	35	0	0	64	0.94
1597135--1597183	22	2.3	22	80	13	57	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)
1597079--1597170	28	3.3	28	71	17	84	53	0	1	45	1.07
1597295--1597326	12	2.6	13	85	14	50	78	0	0	21	0.76
1598061--1598103	20	2.2	20	91	0	68	60	2	4	32	1.30
1598116--1598186	24	3.0	23	76	11	65	50	0	2	46	1.16
1598671--1598715	22	2.1	22	88	8	67	62	0	0	37	0.96
1598669--1598716	20	2.4	20	80	16	55	64	0	0	35	0.94
1598698--1598759	32	2.0	32	83	3	81	43	1	0	54	1.09
1600129--1600166	20	1.9	19	89	5	58	36	0	0	63	0.95
1600424--1600468	21	2.1	22	84	12	58	44	0	0	55	0.99
1602033--1602058	2	13.0	2	100	0	52	50	0	0	50	1.00
1602167--1602197	1	31.0	1	93	0	53	3	0	96	0	0.21
1602549--1602597	14	3.3	14	76	15	53	51	0	0	48	1.00
1603980--1604007	2	14.0	2	100	0	56	50	0	0	50	1.00
1606870--1606965	49	1.9	51	93	4	169	42	4	2	51	1.33
1607087--1607146	10	5.8	10	79	11	59	48	15	0	36	1.45
1607087--1607138	22	2.3	22	96	3	95	50	13	0	36	1.42
1607102--1607140	18	2.2	18	90	0	60	51	10	0	38	1.36
1607207--1607255	2	25.0	2	87	4	73	48	4	0	46	1.20
1607053--1607291	114	2.0	118	89	6	371	43	10	11	34	1.74
1607407--1607454	12	3.9	12	83	8	53	39	0	2	58	1.10
1608538--1608629	40	2.3	40	88	0	130	34	2	5	57	1.34
1609819--1610048	90	2.6	89	80	6	261	30	16	6	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610647--1610706	21	3.0	21	78	11	63	60	0	0	40	0.97
1611395--1611424	15	2.0	15	93	0	51	50	26	0	23	1.50
1611599--1611644	2	23.0	2	100	0	92	50	0	0	50	1.00
1611662--1611704	19	2.3	18	77	14	52	32	0	2	65	1.06
1613166--1613220	22	2.5	20	78	16	56	47	0	0	52	1.00
1614043--1614099	13	4.5	13	79	14	66	38	1	0	59	1.08
1614141--1614173	2	17.0	2	93	6	59	51	0	0	48	1.00
1614333--1614377	2	22.5	2	100	0	90	48	0	0	51	1.00
1614783--1614837	22	2.5	20	78	16	56	47	1	0	50	1.11
1614816--1614864	13	3.8	13	82	12	57	57	0	0	42	0.99
1614819--1614861	14	3.3	14	81	12	56	55	0	0	44	0.99
1615510--1615608	33	3.1	33	71	21	111	50	4	5	40	1.43
1615510--1615645	62	2.2	62	98	0	263	50	3	5	39	1.44
1615531--1615637	29	3.5	29	75	19	119	53	4	6	35	1.48
1615778--1615841	29	2.2	29	97	0	119	51	3	10	34	1.53
1616720--1616773	22	2.4	22	84	6	63	40	0	0	59	0.98
1618009--1618047	20	2.0	20	84	0	51	53	5	0	41	1.23
1618335--1618401	15	3.9	18	71	26	56	47	0	0	52	1.00
1618318--1618390	18	4.4	17	70	21	57	47	0	0	52	1.00
1618360--1618406	25	1.9	24	86	4	67	51	0	0	48	1.00
1621325--1621389	11	5.4	13	75	17	61	61	0	0	38	0.96
1621326--1621449	33	3.5	35	75	16	105	57	0	0	41	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621374--1621443	27	2.6	28	84	6	99	52	0	1	45	1.09
1623992--1624024	9	3.7	9	95	0	57	3	33	18	45	1.65
1624083--1624134	27	2.0	26	96	3	95	44	11	3	40	1.59
1624086--1624135	12	3.9	13	76	19	52	44	10	6	40	1.63
1628767--1628799	9	3.7	9	95	0	57	3	33	18	45	1.65
1628858--1628909	27	2.0	26	96	3	95	44	11	3	40	1.59
1628861--1628910	12	3.9	13	76	19	52	44	10	6	40	1.63
1629078--1629111	13	2.6	13	85	0	50	47	0	0	52	1.00
1629122--1629177	22	2.6	22	74	2	60	35	0	1	62	1.06
1629444--1629481	19	1.9	19	89	5	58	71	2	0	26	1.00
1631454--1631525	28	2.5	31	74	21	75	48	0	0	51	1.00
1632479--1632505	2	13.5	2	100	0	54	51	0	0	48	1.00
1633319--1633393	23	3.2	25	77	17	63	57	0	2	40	1.13
1634394--1634477	27	3.0	28	81	13	77	54	0	1	44	1.07
1634432--1634491	31	2.0	30	83	9	77	55	1	3	40	1.27
1636286--1636315	13	2.3	13	94	0	51	23	10	0	66	1.21
1636425--1636469	21	2.2	21	92	4	74	55	0	0	44	0.99
1637909--1637953	20	2.4	18	82	10	56	33	2	4	60	1.29
1641139--1641163	5	5.0	5	100	0	50	80	0	0	20	0.72
1644686--1644715	14	2.1	14	93	0	51	53	6	0	40	1.27
1647706--1647741	11	3.3	11	88	11	56	27	0	0	72	0.85
1648446--1648508	14	4.3	15	78	15	69	63	1	0	34	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648446--1648528	31	2.8	30	74	15	75	62	2	0	34	1.08
1648658--1648683	11	2.4	11	100	0	52	34	0	0	65	0.93
1648983--1649025	21	2.2	19	84	12	52	39	0	0	60	0.97
1649243--1649324	34	2.4	34	82	10	87	53	0	0	46	1.00
1649231--1649317	30	2.9	29	75	12	95	54	0	0	45	1.00
1649231--1649343	60	1.9	59	81	7	138	53	1	0	45	1.11
1649702--1649738	18	1.9	19	89	10	58	59	0	2	37	1.12
1649836--1649877	15	2.6	17	82	17	63	40	0	0	59	0.97
1649840--1649912	15	4.5	17	80	15	59	41	0	0	58	0.98
1650673--1650724	22	2.3	23	83	9	63	53	1	0	44	1.11
1650718--1650764	24	2.0	24	84	12	62	46	4	2	46	1.34
1652045--1652075	2	15.5	2	100	0	62	51	0	0	48	1.00
1652946--1652984	2	19.5	2	100	0	78	0	48	0	51	1.00
1660504--1660614	30	3.7	30	79	0	114	35	23	6	35	1.80
1666656--1666707	2	25.5	2	84	11	70	44	1	1	51	1.23
1666667--1666712	23	2.0	23	100	0	92	43	4	4	47	1.42
1668272--1668336	23	3.0	21	74	23	62	46	0	1	52	1.10
1668315--1668390	26	3.1	24	78	17	77	57	0	0	42	0.98
1668323--1668390	22	2.8	23	80	17	59	57	0	0	42	0.98
1669254--1669319	33	1.9	33	85	14	89	51	0	0	48	1.00
1669246--1669302	13	4.2	13	72	14	53	52	0	0	47	1.00
1669291--1669358	29	2.3	30	77	5	77	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)
1670005--1670054	26	2.0	24	84	7	64	44	0	0	56	0.99
1670407--1670540	23	6.0	23	66	20	79	58	0	0	41	1.03
1670393--1670544	28	5.0	29	69	25	93	57	0	0	42	1.03
1670914--1670955	19	2.3	19	87	4	59	47	2	2	47	1.28
1671249--1671299	14	3.4	14	80	15	66	52	0	0	47	1.00
1671236--1671305	31	2.2	31	85	7	97	55	0	0	44	0.99
1671250--1671313	19	3.8	17	78	21	64	54	0	0	45	0.99
1671279--1671345	20	3.3	20	78	14	66	58	0	0	41	0.98
1671264--1671313	17	2.7	20	85	11	63	56	0	0	44	0.99
1671237--1671347	37	2.8	37	76	12	98	58	0	0	41	0.98

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