oyster.v9_M.fa.s2.2.7.7.80.10.50.500.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

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: scaffold1009
Parameters: 2 7 7 80 10 50 500
Length:  1861391

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 553 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)
1522773--1522814	21	2.0	21	86	9	59	50	19	14	16	1.79
1524365--1524423	2	29.5	2	100	0	118	49	0	50	0	1.00
1527215--1527249	15	2.3	15	90	9	54	25	0	2	71	1.00
1531329--1531358	13	2.3	13	94	0	51	20	10	23	46	1.80
1534525--1534573	2	24.5	2	100	0	98	0	48	0	51	1.00
1538540--1538662	55	2.2	54	81	5	138	45	8	12	34	1.71
1540216--1540255	2	20.0	2	94	0	62	0	45	0	55	0.99
1549651--1549692	2	21.0	2	100	0	84	0	0	50	50	1.00
1553133--1553266	21	6.4	21	84	3	171	23	17	19	39	1.92
1553133--1553266	42	3.2	42	93	0	223	23	17	19	39	1.92
1553343--1553502	21	7.7	21	81	6	182	38	18	16	26	1.92
1553709--1553789	21	3.9	21	85	0	99	41	19	13	24	1.88
1553709--1553802	42	2.2	42	88	0	134	39	19	13	27	1.89
1553709--1553802	21	4.5	20	84	5	98	39	19	13	27	1.89
1560289--1560323	18	1.9	18	94	0	61	60	2	17	20	1.49
1575911--1575959	2	24.5	2	100	0	98	51	0	48	0	1.00
1589132--1589162	2	15.5	2	100	0	62	0	48	0	51	1.00
1596000--1596036	18	2.1	17	90	5	56	45	24	5	24	1.74
1596288--1596321	2	17.0	2	100	0	68	50	0	50	0	1.00
1609733--1609999	22	11.8	23	70	19	154	40	11	10	37	1.77
1609731--1609998	43	6.0	43	82	9	279	40	11	10	37	1.77
1609731--1609998	92	3.0	85	82	10	302	40	11	10	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1613683--1613897	63	3.4	63	75	2	198	20	14	21	43	1.87
1614255--1614288	15	2.3	15	100	0	68	23	14	20	41	1.89
1616929--1616974	2	23.0	2	100	0	92	0	50	0	50	1.00
1621718--1621794	9	8.2	9	87	8	100	0	24	7	67	1.17
1621721--1621794	6	12.3	6	88	0	103	0	25	6	67	1.15
1621721--1621794	15	4.9	15	91	0	112	0	25	6	67	1.15
1627865--1627921	20	2.8	20	74	15	62	45	1	1	50	1.22
1628818--1628847	12	2.6	12	94	5	53	0	36	26	36	1.57
1633345--1633389	2	22.5	2	100	0	90	0	48	0	51	1.00
1638060--1638557	169	2.9	169	89	3	741	33	13	26	26	1.93
1638836--1639513	168	4.0	170	86	5	895	32	14	25	27	1.95
1638796--1639513	172	4.2	171	85	6	886	32	15	24	28	1.95
1643426--1643488	30	2.1	30	100	0	126	25	22	15	36	1.94
1646984--1647040	27	2.1	27	87	6	80	24	26	21	28	1.99
1648289--1648333	16	2.8	16	96	0	81	46	22	24	6	1.75
1649439--1649502	16	4.0	16	93	0	101	7	21	23	46	1.77
1651026--1651051	2	13.0	2	100	0	52	50	0	50	0	1.00
1661175--1661247	24	3.0	24	100	0	146	32	8	16	42	1.78
1666878--1667305	27	15.9	27	87	1	608	32	13	18	35	1.90
1667408--1667487	27	3.0	27	92	0	133	32	12	20	35	1.90
1667523--1667613	20	4.5	20	91	0	128	38	14	16	30	1.88
1674881--1674918	19	2.2	18	86	13	53	42	13	15	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1676342--1676391	23	2.2	23	100	0	100	18	18	36	28	1.94
1679194--1679224	11	2.8	11	100	0	62	93	6	0	0	0.35
1679411--1679531	30	4.0	30	95	0	206	28	19	30	22	1.98
1687680--1687723	2	22.0	2	100	0	88	0	50	0	50	1.00
1688037--1688071	17	2.1	17	89	10	54	82	14	2	0	0.77
1688029--1688072	12	3.4	13	84	9	63	81	13	2	2	0.88
1690187--1690254	2	34.0	2	93	0	118	0	52	0	47	1.00
1692580--1692980	200	2.0	200	100	0	802	25	18	23	32	1.97
1720549--1720888	21	16.2	21	85	4	366	42	11	15	30	1.82
1720549--1720888	105	3.2	105	93	0	565	42	11	15	30	1.82
1720553--1720880	84	3.9	84	89	2	446	42	10	15	31	1.82
1728765--1729060	145	2.0	145	88	3	436	32	18	19	29	1.96
1745960--1745998	1	39.0	1	100	0	78	0	100	0	0	0.00
1761032--1761088	2	28.5	2	100	0	114	0	49	0	50	1.00
1763735--1764137	199	2.0	199	100	0	806	45	12	6	35	1.68
1774895--1775026	4	33.0	4	100	0	264	50	0	25	25	1.50
1783222--1783275	22	2.5	22	81	6	65	44	27	18	9	1.80
1794810--1794835	12	2.2	12	100	0	52	15	7	26	50	1.71
1804763--1804803	17	2.3	18	80	16	50	51	7	7	34	1.58
1814114--1814147	2	17.0	2	100	0	68	0	50	0	50	1.00
1825932--1825971	11	3.7	11	86	3	55	35	10	30	25	1.88
1826042--1826091	11	4.6	11	95	2	84	28	30	10	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1826084--1826144	22	2.8	22	78	9	70	18	24	14	42	1.88
1826473--1826516	2	22.0	2	100	0	88	0	50	0	50	1.00
1826731--1826953	112	2.0	112	98	0	428	32	18	18	29	1.95
1827964--1828017	11	4.9	11	95	0	99	29	9	33	27	1.88
1828180--1828218	11	3.6	11	82	6	53	30	23	7	38	1.83
1853270--1853294	2	12.5	2	100	0	50	48	0	0	52	1.00
1854755--1854780	12	2.2	12	100	0	52	38	15	7	38	1.76

Tables:   1   2   3   4   5

The End!