genome.fa.s74.2.7.7.80.10.50.1000.8.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: Scaffold74
Parameters: 2 7 7 80 10 50 1000
Length:  4633657

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   

This is table  8  of  24  ( 2862 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)
1566191--1566237	19	2.4	19	82	10	51	68	0	2	29	1.02
1566402--1566442	2	20.5	2	100	0	82	0	48	0	51	1.00
1567648--1567684	10	4.0	10	86	13	53	54	0	0	45	1.00
1567670--1567702	16	2.1	16	88	11	50	42	0	0	57	0.98
1567863--1567887	2	12.5	2	100	0	50	52	0	0	48	1.00
1576733--1576761	14	2.1	14	93	6	51	58	0	0	41	0.98
1578528--1578553	7	3.7	7	100	0	52	88	0	0	11	0.52
1590447--1590484	2	19.0	2	100	0	76	50	0	0	50	1.00
1591264--1591347	41	2.0	41	93	0	141	58	2	2	36	1.24
1592133--1592182	24	2.0	26	84	11	68	22	2	2	74	1.03
1595881--1595917	17	2.2	17	100	0	74	35	29	8	27	1.85
1606455--1606520	30	2.2	31	91	2	107	51	3	0	45	1.16
1606463--1606519	14	3.9	14	74	17	53	57	1	0	40	1.09
1611146--1611209	9	7.6	9	69	23	50	34	0	3	62	1.11
1611145--1611192	17	2.8	17	84	12	62	37	0	2	60	1.09
1611228--1611274	18	2.6	18	80	16	53	61	0	0	38	0.96
1611547--1611590	21	2.2	20	87	4	61	45	0	4	50	1.22
1611563--1611601	20	2.0	20	85	10	53	51	0	2	46	1.14
1611591--1611631	20	2.0	20	86	9	57	39	0	0	60	0.96
1611565--1611636	13	5.5	13	73	20	53	41	0	1	56	1.07
1612257--1612320	30	2.2	29	81	13	80	59	0	0	40	0.97
1612945--1613001	21	2.8	21	84	15	75	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1612987--1613027	21	1.9	22	85	5	57	53	0	0	46	1.00
1620925--1620992	22	3.3	21	73	24	65	45	0	0	54	0.99
1620909--1620972	25	2.7	23	78	14	67	43	0	1	54	1.09
1624782--1624834	23	2.3	23	83	3	61	47	0	1	50	1.12
1630188--1630215	2	14.0	2	100	0	56	50	0	0	50	1.00
1654476--1654794	2	159.5	2	82	0	242	37	0	13	49	1.42
1654476--1654793	18	17.2	18	79	5	267	37	0	13	49	1.42
1654476--1654794	30	10.8	30	79	7	276	37	0	13	49	1.42
1655482--1655618	69	2.0	68	91	2	222	62	9	8	20	1.51
1656734--1656770	15	2.5	15	86	13	58	54	0	2	43	1.14
1656790--1656834	21	2.3	19	84	7	54	66	2	0	31	1.04
1657031--1657134	16	6.7	16	67	27	64	45	0	0	54	0.99
1657031--1657076	15	2.9	16	83	9	58	47	0	0	52	1.00
1657070--1657118	22	2.2	23	88	3	73	38	0	0	61	0.96
1657034--1657136	31	3.3	30	74	21	88	44	0	0	55	0.99
1657033--1657141	56	1.9	58	83	9	143	44	0	0	55	0.99
1657077--1657128	22	2.4	21	84	9	61	40	0	0	59	0.97
1659368--1659392	1	25.0	1	100	0	50	0	0	100	0	0.00
1662195--1662253	17	3.6	17	77	20	63	57	1	1	38	1.19
1665212--1665308	48	2.0	48	95	0	176	23	20	13	42	1.88
1674078--1675034	482	2.0	474	95	3	1708	25	15	19	39	1.91
1681279--1681310	2	16.0	2	93	0	55	46	3	0	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682653--1682684	2	16.0	2	100	0	64	0	50	0	50	1.00
1682687--1682723	2	19.0	2	94	5	67	51	0	0	48	1.00
1683308--1683334	2	13.5	2	100	0	54	51	0	0	48	1.00
1684168--1684211	20	2.2	20	84	8	54	59	0	2	38	1.10
1684993--1685037	10	4.1	11	83	16	58	51	0	0	48	1.00
1684916--1685028	41	2.7	43	76	15	112	46	0	0	53	1.00
1685075--1685106	16	2.0	16	93	0	55	21	21	18	37	1.94
1685969--1686042	28	2.7	28	74	17	84	55	0	1	43	1.08
1685969--1686042	27	2.7	27	76	19	82	55	0	1	43	1.08
1686101--1686155	21	2.8	20	74	17	60	50	0	0	49	1.00
1686101--1686177	40	1.9	40	84	10	104	54	0	0	45	0.99
1686398--1686424	2	13.5	2	100	0	54	48	0	0	51	1.00
1687927--1687976	17	2.9	18	79	5	59	56	4	2	38	1.30
1688804--1688833	15	1.9	16	93	6	53	33	3	3	60	1.30
1689213--1689253	22	2.0	21	85	9	57	48	0	0	51	1.00
1689204--1689250	11	4.2	11	76	13	51	44	0	0	55	0.99
1689246--1689280	15	2.4	15	90	4	54	48	0	0	51	1.00
1689233--1689296	24	2.6	26	79	16	75	46	0	0	53	1.00
1693672--1693752	20	4.2	20	77	11	73	58	3	1	37	1.24
1696067--1696151	42	2.0	42	95	0	152	21	15	22	41	1.90
1698956--1698989	15	2.3	15	94	0	59	47	2	0	50	1.16
1699674--1699720	16	3.1	15	84	12	60	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1713332--1713369	20	1.9	20	88	0	58	36	2	0	60	1.11
1713550--1713596	24	2.0	24	82	0	58	61	2	2	34	1.20
1713644--1713696	12	4.2	12	81	18	63	58	0	0	41	0.98
1713643--1713693	26	1.9	27	88	11	79	60	0	0	39	0.97
1713647--1713696	14	3.8	13	80	19	52	58	0	0	42	0.98
1713951--1714048	50	2.0	49	89	2	151	30	22	20	26	1.98
1715535--1715564	9	3.3	9	95	0	51	30	16	20	33	1.94
1715980--1716008	3	9.7	3	100	0	58	65	0	0	34	0.93
1716512--1716652	30	4.6	32	72	16	120	55	2	0	41	1.14
1716560--1716641	18	4.3	18	70	20	60	62	0	0	37	0.96
1716593--1716632	19	2.0	20	85	4	55	60	0	0	40	0.97
1718470--1718546	25	3.0	24	73	17	66	44	3	0	51	1.19
1718552--1718612	21	3.1	19	79	11	52	68	0	1	29	0.99
1718542--1718597	28	1.9	28	82	7	67	64	0	3	32	1.11
1718575--1718616	10	4.2	10	88	8	59	69	0	0	30	0.89
1718575--1718616	21	2.1	21	86	8	61	69	0	0	30	0.89
1719068--1719100	16	2.0	17	88	5	50	63	0	0	36	0.95
1719693--1719721	8	3.8	8	90	9	51	48	0	0	51	1.00
1719828--1719879	18	2.8	17	80	13	59	36	0	0	63	0.95
1721520--1721561	2	21.0	2	100	0	84	50	0	0	50	1.00
1724469--1724502	17	2.1	17	88	5	52	41	11	2	44	1.56
1727576--1727618	6	7.3	6	92	5	70	69	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1727771--1727801	2	15.5	2	100	0	62	48	0	0	51	1.00
1729571--1729612	21	2.0	22	85	4	59	47	2	0	50	1.14
1729610--1729683	23	3.2	23	71	3	58	36	0	1	62	1.04
1734561--1734605	2	22.5	2	90	0	63	0	6	48	44	1.29
1740597--1740621	13	1.9	13	100	0	50	92	0	8	0	0.40
1740601--1740625	11	2.3	11	100	0	50	92	0	8	0	0.40
1741663--1741690	5	5.6	5	100	0	56	42	0	0	57	0.99
1742838--1742873	16	2.2	17	85	14	58	52	0	0	47	1.00
1742844--1742874	16	1.9	16	100	0	62	58	0	0	41	0.98
1743365--1743394	10	3.1	10	90	9	53	30	0	0	70	0.88
1747402--1747741	111	3.0	112	66	11	312	30	21	18	29	1.97
1755840--1755880	3	13.7	3	100	0	82	65	0	34	0	0.93
1756638--1756695	25	2.3	25	80	11	64	46	0	1	51	1.11
1757474--1757543	37	1.9	36	82	8	88	47	0	7	45	1.30
1758470--1758518	19	2.6	19	84	12	57	55	0	2	42	1.11
1759849--1759881	2	16.5	2	93	0	57	54	0	45	0	0.99
1774167--1774214	2	24.0	2	100	0	96	50	0	0	50	1.00
1774430--1774467	2	19.0	2	100	0	76	50	0	0	50	1.00
1783010--1783040	11	2.8	11	100	0	62	48	0	0	51	1.00
1785800--1785840	19	2.2	19	86	8	57	46	0	0	53	1.00
1785801--1785867	18	3.7	18	78	9	57	52	1	0	46	1.09
1785809--1785866	24	2.4	24	82	5	73	51	1	0	46	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1785801--1785851	24	2.0	26	92	7	88	49	0	0	50	1.00
1785821--1785893	17	4.4	17	71	13	62	63	1	0	35	1.04
1785977--1786008	3	10.7	3	100	0	64	0	31	0	68	0.90
1786383--1786441	18	3.3	18	72	11	50	45	0	1	52	1.10
1786426--1786494	31	2.3	30	82	7	77	59	0	1	39	1.06
1786642--1786705	20	3.2	19	82	8	74	60	1	0	37	1.06
1793343--1793404	25	2.4	28	77	20	73	51	0	0	48	1.00
1793498--1793544	19	2.5	19	75	6	51	59	6	0	34	1.23
1794014--1794097	24	3.5	24	74	16	75	44	1	1	53	1.16
1794802--1794859	9	5.4	11	75	20	52	60	1	0	37	1.07

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