genome.fa.s36.2.7.7.80.10.50.1000.10.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

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   28   

This is table  10  of  28  ( 3342 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)
1574852--1575098	78	3.2	79	83	2	336	27	25	14	31	1.95
1575055--1575131	28	2.8	28	91	0	118	22	28	20	28	1.98
1575113--1575233	51	2.4	51	87	2	172	28	24	15	31	1.96
1575202--1575390	79	2.4	79	83	1	245	26	23	15	33	1.95
1582027--1582061	15	2.3	15	90	0	52	74	0	0	25	0.82
1582024--1582067	19	2.1	22	88	12	67	68	0	0	31	0.90
1582053--1582161	18	5.7	18	72	19	78	56	0	2	40	1.13
1582068--1582124	20	2.7	21	83	5	62	50	0	5	43	1.24
1582037--1582145	54	2.0	57	82	12	138	55	0	2	41	1.14
1583031--1583081	10	5.1	10	80	4	50	56	0	0	43	0.99
1583388--1583451	16	3.9	17	73	20	64	59	0	0	40	0.97
1584691--1584733	2	21.5	2	100	0	86	51	0	0	48	1.00
1584862--1584893	2	16.0	2	93	0	55	46	0	0	53	1.00
1590810--1590876	19	3.6	17	76	17	55	46	1	0	52	1.09
1590787--1590868	32	2.5	33	82	7	98	43	2	0	53	1.13
1590827--1590882	18	3.1	18	73	19	53	44	0	0	55	0.99
1591299--1591356	21	2.9	20	72	12	57	29	1	0	68	0.99
1592129--1592170	22	1.9	22	85	9	59	45	0	2	52	1.13
1592153--1592189	17	2.2	17	95	0	65	45	2	0	51	1.15
1593154--1593188	17	2.0	18	88	5	54	31	5	2	60	1.35
1596952--1597042	32	2.8	32	88	0	128	52	1	2	43	1.20
1596988--1597046	21	2.9	20	80	12	59	54	1	0	44	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1597674--1597723	2	25.0	2	91	0	82	48	2	2	48	1.24
1599332--1599378	24	2.0	24	83	8	60	53	6	0	40	1.27
1599522--1599593	30	2.3	30	86	9	92	54	0	0	45	0.99
1599664--1599688	2	12.5	2	100	0	50	48	0	0	52	1.00
1600881--1600955	20	3.8	20	78	0	87	34	13	12	40	1.81
1600881--1600958	40	2.0	39	87	2	111	34	12	12	39	1.82
1601867--1601919	23	2.3	23	100	0	106	18	11	9	60	1.57
1601878--1601924	23	2.2	21	85	11	60	21	8	8	61	1.51
1605242--1605268	4	6.8	4	100	0	54	22	0	0	77	0.76
1614997--1615043	8	5.8	8	85	12	60	89	8	2	0	0.57
1614995--1615043	13	3.9	13	86	7	66	87	10	2	0	0.62
1614997--1615043	25	1.9	24	91	4	76	89	8	2	0	0.57
1614996--1615035	1	40.0	1	84	0	53	92	7	0	0	0.38
1616267--1617606	28	46.9	29	90	2	1938	28	32	17	21	1.96
1616266--1617618	86	15.8	85	88	2	1865	28	32	17	21	1.96
1618132--1618206	20	3.8	20	78	0	87	34	13	12	40	1.81
1618132--1618209	40	2.0	39	87	2	111	34	12	12	39	1.82
1619118--1619170	23	2.3	23	100	0	106	18	11	9	60	1.57
1619129--1619175	23	2.2	21	85	11	60	21	8	8	61	1.51
1621491--1621562	25	3.1	22	72	20	58	68	4	0	27	1.08
1621494--1621547	20	2.7	21	78	16	53	68	1	0	29	1.00
1621489--1621545	9	6.3	9	79	18	57	68	1	0	29	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621928--1621979	19	2.8	19	72	13	54	53	0	0	46	1.00
1621996--1622034	11	3.5	11	89	3	51	53	0	0	46	1.00
1622575--1622621	24	2.0	24	83	8	60	55	0	6	38	1.26
1623049--1623094	21	2.2	21	88	7	67	58	4	4	32	1.37
1624358--1624397	19	2.2	19	90	4	64	57	0	5	37	1.21
1624599--1624746	75	2.0	75	94	0	260	40	10	6	42	1.65
1625041--1625103	27	2.4	26	82	12	76	58	0	6	34	1.23
1625325--1625385	27	2.2	28	80	8	72	60	6	4	27	1.42
1629853--1629882	15	2.0	15	100	0	60	0	13	0	86	0.57
1629853--1629882	16	1.9	16	93	6	53	0	13	0	86	0.57
1632586--1632614	2	15.0	2	92	7	51	51	0	0	48	1.00
1632886--1632919	16	2.2	15	89	5	50	55	0	2	41	1.15
1634192--1634253	21	2.8	21	73	7	52	45	1	0	53	1.10
1635768--1635937	50	3.4	50	90	1	252	27	19	21	32	1.97
1635876--1636026	61	2.5	61	98	0	293	25	23	18	33	1.97
1640434--1640665	50	4.6	50	91	2	376	28	19	20	31	1.97
1643062--1643099	13	2.9	13	81	14	51	28	2	0	68	1.03
1643341--1643404	25	2.7	24	83	7	78	31	3	28	37	1.73
1648043--1648132	22	4.0	22	78	8	90	42	3	18	35	1.67
1649489--1649537	20	2.5	19	81	15	55	51	4	2	42	1.32
1649703--1649751	14	3.5	14	86	10	73	34	0	0	65	0.93
1649700--1649754	28	2.0	28	92	0	92	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1651654--1651697	23	1.9	23	86	9	63	40	2	0	56	1.11
1651669--1651719	15	3.3	15	83	8	50	41	0	0	58	0.98
1651679--1651719	18	2.4	17	88	12	57	39	0	0	60	0.96
1653761--1653809	21	2.4	20	80	10	55	69	4	0	26	1.06
1653824--1653881	22	2.6	23	78	13	59	56	3	0	39	1.16
1654200--1654240	21	2.0	21	90	0	64	56	4	2	36	1.34
1654454--1654499	21	2.1	22	84	4	58	54	0	0	45	0.99
1655787--1655867	16	4.6	17	75	14	58	56	1	0	41	1.07
1655787--1655832	17	2.6	18	89	6	67	63	0	0	36	0.95
1655861--1655914	21	2.6	21	76	2	56	59	0	0	40	0.98
1655794--1655914	41	3.0	40	73	15	117	57	0	0	42	1.04
1657801--1657869	12	5.4	12	69	19	50	68	2	1	27	1.13
1659848--1659892	21	2.1	21	100	0	90	37	33	0	28	1.58
1666802--1666826	12	2.1	12	100	0	50	92	0	8	0	0.40
1667272--1667332	27	2.3	26	75	13	63	54	1	0	44	1.10
1668005--1668030	10	2.6	10	100	0	52	30	0	0	69	0.89
1668750--1668798	22	2.3	22	86	6	66	42	0	2	55	1.11
1668794--1668835	14	2.8	16	82	14	52	61	2	0	35	1.09
1670220--1670260	21	2.0	21	85	4	57	51	0	0	48	1.00
1670846--1670925	28	2.8	28	70	19	65	45	2	1	51	1.22
1670936--1670979	15	2.9	15	78	21	56	47	0	0	52	1.00
1670998--1671062	32	2.1	31	82	8	78	49	1	0	49	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1671086--1671126	17	2.5	17	80	11	50	75	9	0	14	1.04
1671233--1671272	21	1.9	21	85	10	55	52	0	0	47	1.00
1671320--1671391	37	2.0	36	81	13	85	58	0	2	38	1.13
1671378--1671437	20	2.9	19	78	11	57	63	0	0	36	0.95
1671366--1671437	21	3.4	20	74	14	56	62	0	1	36	1.04
1671366--1671437	20	3.4	20	72	16	56	62	0	1	36	1.04
1671452--1671488	19	2.0	20	89	10	60	40	0	0	59	0.97
1677079--1677109	15	2.0	15	93	6	53	80	0	0	19	0.71
1678887--1678934	21	2.2	22	85	10	64	60	2	0	37	1.09
1678887--1678925	20	1.9	21	89	5	62	58	0	0	41	0.98
1683507--1683539	2	16.5	2	100	0	66	51	0	0	48	1.00
1689236--1689284	22	2.2	22	100	0	98	67	8	8	16	1.40
1690205--1690279	20	3.8	20	80	3	80	40	12	13	34	1.81
1690202--1690279	40	2.0	39	87	2	111	39	12	12	34	1.82
1690806--1692581	28	61.6	28	88	5	964	22	16	33	27	1.95
1690794--1691888	32	36.6	30	90	5	1078	19	17	33	29	1.95
1691880--1692617	27	27.0	27	89	2	1100	28	14	34	23	1.93
1691880--1692617	82	9.0	81	90	2	1100	28	14	34	23	1.93
1700125--1700173	22	2.2	22	100	0	98	67	8	8	16	1.40
1701094--1701168	20	3.8	20	80	3	80	40	12	13	34	1.81
1701091--1701168	40	2.0	39	87	2	111	39	12	12	34	1.82
1701695--1703470	28	61.6	28	88	5	964	22	16	33	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701683--1702777	32	36.6	30	90	5	1078	19	17	33	29	1.95
1702769--1703506	27	27.0	27	89	2	1100	28	14	34	23	1.93
1702769--1703506	82	9.0	81	90	2	1100	28	14	34	23	1.93
1711014--1711062	22	2.2	22	100	0	98	67	8	8	16	1.40
1711983--1712057	20	3.8	20	80	3	80	40	12	13	34	1.81
1711980--1712057	40	2.0	39	87	2	111	39	12	12	34	1.82
1715568--1715810	97	2.5	97	85	0	315	31	12	27	28	1.93
1718000--1718076	20	3.9	19	83	8	100	41	11	14	32	1.82
1718822--1718854	17	1.9	17	100	0	66	51	36	6	6	1.51
1721461--1721513	18	2.9	18	78	15	56	41	1	0	56	1.10

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   28