genome.fa.s412.2.7.7.80.10.50.1000.11.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   29   30   31   32   

This is table  11  of  32  ( 3728 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)
1535667--1535695	13	2.1	14	93	6	51	37	0	0	62	0.96
1535988--1536027	21	1.9	21	90	10	64	30	0	0	70	0.88
1536664--1536697	16	2.1	16	88	0	50	58	0	2	38	1.13
1537961--1537993	2	16.5	2	93	0	57	48	3	0	48	1.17
1537947--1537990	12	3.7	12	84	0	52	43	6	2	47	1.42
1538605--1538681	14	5.6	14	75	18	81	58	0	0	41	0.98
1538589--1538633	17	2.8	17	77	19	51	53	0	0	46	1.00
1538598--1538681	28	3.0	28	78	16	95	55	0	0	44	0.99
1538607--1538729	54	2.3	54	79	13	128	60	0	0	38	1.02
1538679--1538738	11	5.4	11	73	15	52	66	0	1	31	1.01
1538662--1538737	23	3.4	23	75	12	70	64	0	1	34	1.02
1539406--1539465	29	2.0	30	84	9	79	65	11	1	21	1.34
1539693--1539778	18	4.8	18	79	12	88	61	0	3	34	1.13
1539708--1539783	12	6.2	12	71	18	50	63	1	2	32	1.17
1540131--1540181	25	2.0	27	88	7	79	50	0	0	49	1.00
1540473--1540511	17	2.3	17	82	8	53	38	0	0	61	0.96
1540503--1540559	19	3.1	18	80	7	69	57	0	0	42	0.98
1540508--1540559	13	4.2	12	74	11	52	59	0	0	40	0.97
1540712--1540757	23	2.0	24	91	4	76	36	4	0	58	1.18
1540813--1540870	2	29.0	2	96	0	107	50	1	0	48	1.11
1551506--1551532	13	2.1	13	100	0	54	48	14	22	14	1.81
1553623--1553791	15	11.5	15	71	21	76	49	0	1	49	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553635--1553683	13	4.1	13	75	20	52	42	0	2	55	1.11
1553619--1553721	22	4.5	23	75	18	99	45	0	0	53	1.06
1553623--1553732	6	19.7	6	68	28	50	46	0	0	52	1.06
1553613--1553713	10	10.3	10	73	14	52	46	0	0	52	1.07
1553625--1553731	41	2.5	41	76	10	101	46	0	0	52	1.06
1553706--1553810	16	6.6	16	73	13	83	55	0	1	42	1.11
1553741--1553810	15	4.4	15	78	18	70	60	0	0	40	0.97
1555732--1555772	22	1.9	21	85	14	57	29	0	9	60	1.28
1556442--1556488	22	2.0	23	84	12	60	51	4	6	38	1.47
1557328--1557388	2	32.0	2	77	9	65	40	1	1	55	1.19
1557651--1557693	19	2.3	19	83	0	59	34	0	0	65	0.93
1558292--1558342	21	2.5	20	78	12	50	58	0	0	41	0.98
1559217--1559258	14	2.9	14	86	10	57	52	0	2	45	1.13
1559217--1559262	5	9.4	5	81	13	51	54	0	2	43	1.12
1559541--1559574	18	1.9	18	94	5	61	11	5	8	73	1.24
1560720--1560776	23	2.5	22	86	13	80	43	0	0	56	0.99
1563641--1563675	17	2.1	17	89	5	54	8	34	11	45	1.71
1563798--1563836	18	2.2	18	86	9	53	41	0	0	58	0.98
1565192--1565352	78	2.0	79	89	5	245	27	19	14	38	1.91
1569162--1569188	11	2.5	11	100	0	54	25	33	0	40	1.56
1570020--1570082	31	2.0	31	100	0	126	15	9	26	47	1.76
1570319--1570378	19	3.3	19	64	17	54	40	6	16	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570307--1570378	36	2.0	36	100	0	144	38	5	16	38	1.72
1570670--1570712	14	2.9	15	72	6	52	55	0	0	44	0.99
1571020--1571082	22	2.7	23	72	18	60	46	0	0	53	1.00
1571445--1571501	20	2.8	20	78	5	60	40	1	1	56	1.20
1571835--1571914	21	4.0	20	77	18	85	48	0	0	51	1.00
1577769--1577814	11	4.2	11	78	10	58	58	0	0	41	0.98
1577780--1577818	15	2.6	15	84	11	53	61	0	0	38	0.96
1577792--1577872	33	2.4	33	83	6	92	56	0	0	43	0.99
1577816--1577916	43	2.3	44	80	10	100	57	1	0	40	1.10
1578085--1578114	5	5.8	5	96	4	51	20	0	0	80	0.72
1578246--1578291	19	2.5	18	86	13	67	56	0	0	43	0.99
1578299--1578386	28	3.5	24	73	20	65	47	1	0	51	1.08
1578313--1578371	28	2.1	29	83	3	75	42	1	0	55	1.09
1578353--1578394	12	3.8	12	84	15	63	52	0	0	47	1.00
1578353--1578396	21	2.1	21	83	8	54	54	0	0	45	0.99
1578452--1578493	22	1.9	22	90	0	66	50	7	11	30	1.66
1578763--1578821	18	3.1	19	76	16	52	54	5	0	40	1.23
1578994--1579034	2	21.0	2	95	5	75	48	0	0	51	1.00
1579277--1579324	11	4.5	11	85	12	64	58	0	2	39	1.10
1579281--1579338	21	2.7	21	76	15	64	60	0	1	37	1.07
1579560--1579589	2	15.0	2	100	0	60	0	50	0	50	1.00
1588437--1588522	39	2.2	39	93	2	147	37	26	12	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589614--1589646	16	2.0	17	88	5	50	42	0	0	57	0.98
1589668--1589719	26	2.0	26	82	14	63	44	1	1	51	1.23
1590288--1590331	16	2.6	17	78	10	54	54	0	6	38	1.27
1592269--1592326	23	2.5	23	81	13	66	43	0	0	56	0.99
1593919--1594340	207	2.0	207	97	0	790	41	13	27	17	1.87
1597297--1597330	2	17.0	2	100	0	68	50	0	50	0	1.00
1599971--1600008	2	19.0	2	100	0	76	50	0	0	50	1.00
1600196--1600235	14	2.7	15	84	3	55	5	10	0	85	0.75
1600193--1600230	15	2.5	15	91	4	58	2	10	0	86	0.66
1600462--1600493	2	16.0	2	93	0	55	46	0	3	50	1.17
1601322--1601361	2	20.0	2	100	0	80	50	0	0	50	1.00
1601643--1601672	2	15.0	2	100	0	60	50	0	0	50	1.00
1601789--1601816	2	14.0	2	100	0	56	50	0	0	50	1.00
1603047--1603080	2	17.0	2	100	0	68	50	0	0	50	1.00
1603182--1603207	2	13.0	2	100	0	52	50	0	0	50	1.00
1605745--1605777	4	8.2	4	93	0	57	48	24	0	27	1.51
1607714--1607751	2	19.0	2	88	0	58	50	0	2	47	1.15
1607941--1607992	24	2.3	22	83	6	59	44	1	1	51	1.23
1609501--1609530	2	15.0	2	100	0	60	50	0	0	50	1.00
1611142--1611201	31	1.9	31	83	12	79	60	1	0	38	1.07
1611898--1611930	17	1.9	17	93	0	57	51	3	0	45	1.16
1612856--1612909	26	2.1	26	82	6	65	37	1	0	61	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1614448--1614491	17	2.4	18	81	7	54	50	6	2	40	1.42
1619926--1619965	21	2.0	21	85	14	57	42	0	0	57	0.98
1619944--1620009	34	1.9	34	84	3	87	48	0	0	51	1.00
1619985--1620022	17	2.2	17	86	9	51	55	0	0	44	0.99
1620519--1620545	12	2.2	12	100	0	54	0	0	7	92	0.38
1628227--1628294	22	3.1	21	70	15	57	50	1	0	48	1.10
1628208--1628343	21	6.8	19	65	24	57	50	0	0	47	1.11
1628555--1628632	31	2.5	32	75	6	88	51	3	2	42	1.34
1628884--1628925	22	1.9	22	85	9	59	35	0	0	64	0.94
1629392--1629456	22	3.0	22	71	8	62	56	0	0	43	0.99
1632611--1632692	16	4.8	17	73	14	64	54	1	0	43	1.07
1632948--1632981	16	2.2	16	89	5	52	70	0	0	29	0.87
1638511--1639027	263	2.0	263	87	1	750	37	8	10	43	1.69
1640200--1640249	17	2.9	17	90	0	82	30	0	0	70	0.88
1640200--1640249	12	4.3	12	82	7	68	30	0	0	70	0.88
1640286--1640314	2	14.5	2	100	0	58	51	0	0	48	1.00
1643837--1643891	15	3.7	15	90	0	83	7	12	52	27	1.65
1643837--1643909	15	4.7	15	87	5	74	9	15	50	24	1.73
1653521--1653614	29	3.2	29	69	20	72	41	0	2	56	1.11
1653985--1654059	38	2.0	37	97	2	141	40	8	5	46	1.56
1654355--1654418	33	1.9	33	84	6	85	50	3	0	46	1.17
1655041--1655078	12	3.2	12	85	3	51	73	2	0	23	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1659712--1659756	23	2.0	21	83	8	54	33	2	2	62	1.20
1661086--1661121	18	2.0	18	100	0	72	38	16	5	38	1.72
1665365--1665414	26	1.9	26	83	0	64	56	4	6	34	1.43
1665403--1665450	23	2.0	25	84	12	64	45	6	10	37	1.64
1665468--1665511	19	2.3	19	84	4	52	56	0	0	43	0.99
1666316--1666381	23	2.8	23	88	2	96	45	3	0	51	1.16
1666895--1666929	2	17.5	2	100	0	70	51	0	0	48	1.00
1667609--1667655	24	1.9	25	83	12	62	44	0	0	55	0.99
1668823--1668871	23	2.1	23	92	0	80	51	10	2	36	1.48
1669952--1670034	30	2.7	31	80	9	73	50	2	0	46	1.14

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   29   30   31   32