oyster.v9_M.fa.s5.2.7.7.80.10.50.500.5.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: scaffold102
Parameters: 2 7 7 80 10 50 500
Length:  1727112

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 549 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)
1518795--1519418	36	17.4	36	85	5	809	37	12	27	22	1.91
1518795--1519693	109	8.2	108	81	10	959	36	12	27	23	1.91
1519402--1519434	16	2.1	15	94	5	57	45	12	24	15	1.79
1519366--1519469	52	2.0	50	83	7	129	39	11	25	22	1.88
1519427--1519693	38	7.4	36	80	11	296	34	13	27	24	1.93
1519332--1519492	87	1.8	86	86	4	225	37	11	26	22	1.89
1519427--1519693	73	3.7	73	81	10	307	34	13	27	24	1.93
1532885--1532935	18	2.8	18	80	11	68	19	27	19	33	1.96
1532850--1532914	30	2.2	30	97	0	121	20	32	16	30	1.95
1536897--1537090	63	3.1	63	96	0	343	28	17	22	31	1.96
1539634--1539864	42	5.5	42	90	2	333	35	23	8	32	1.85
1541206--1541238	14	2.4	14	94	0	57	18	30	24	27	1.98
1541259--1541294	15	2.4	15	95	0	63	16	25	25	33	1.96
1541220--1541568	76	4.8	76	83	9	413	20	26	16	36	1.93
1541190--1541568	146	2.6	150	81	8	428	20	25	17	36	1.94
1541481--1541530	15	3.4	15	83	2	57	18	22	26	34	1.96
1578429--1578453	12	2.1	12	100	0	50	44	16	24	16	1.86
1592673--1592770	47	2.1	47	98	0	187	32	20	12	34	1.90
1595909--1595940	2	16.0	2	100	0	64	50	0	50	0	1.00
1602462--1602511	5	10.0	5	87	8	50	0	0	20	80	0.72
1602881--1602928	2	24.0	2	100	0	96	50	0	50	0	1.00
1618151--1618194	22	2.0	22	95	0	79	52	9	13	25	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619737--1619920	93	2.0	94	90	4	291	30	10	29	29	1.91
1643246--1643865	25	24.4	25	87	3	864	29	21	18	30	1.97
1644733--1644790	2	29.0	2	92	0	98	46	0	53	0	1.00
1645233--1645347	32	3.6	32	92	0	194	7	28	22	40	1.82
1645260--1645345	16	5.4	16	64	10	59	6	27	24	40	1.81
1645268--1645354	16	5.4	16	64	10	52	6	31	21	40	1.80
1645259--1645365	32	3.5	29	87	5	117	7	28	25	39	1.82
1645873--1646169	151	2.0	148	86	3	416	39	14	15	30	1.87
1651871--1651916	2	23.0	2	100	0	92	50	0	50	0	1.00
1655007--1655039	11	3.0	11	90	0	57	27	15	18	39	1.90
1656267--1656291	13	1.9	13	100	0	50	44	24	0	32	1.54
1656304--1656643	11	30.9	11	85	0	419	27	8	17	46	1.76
1658444--1658490	2	23.5	2	100	0	94	48	0	51	0	1.00
1664556--1665144	180	3.3	180	97	0	1133	36	17	16	29	1.92
1666607--1666681	39	1.9	39	88	0	114	28	12	18	41	1.86
1666774--1668126	39	34.7	38	89	2	1726	29	16	18	35	1.93
1666791--1668126	78	17.2	78	90	0	1969	29	16	18	35	1.93
1666774--1668126	117	11.6	117	89	1	1975	29	16	18	35	1.93
1668678--1668908	56	4.1	56	93	0	372	22	19	22	36	1.95
1669115--1669184	16	4.4	16	83	0	95	35	4	17	42	1.69
1673510--1673724	107	2.0	107	96	0	394	29	23	20	26	1.98
1675411--1675457	2	23.5	2	100	0	94	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1679100--1679571	51	9.0	51	84	8	597	32	16	28	22	1.95
1679100--1679571	102	4.5	102	88	7	701	32	16	28	22	1.95
1679328--1679432	34	3.2	34	90	8	180	31	17	25	25	1.97
1679228--1679534	167	1.8	167	95	0	560	31	16	28	23	1.96
1679177--1679571	218	1.8	218	93	0	682	32	16	28	22	1.96
1683939--1683982	2	22.0	2	100	0	88	0	50	0	50	1.00
1687107--1687131	13	1.9	13	100	0	50	40	12	8	40	1.72
1687940--1688063	43	2.9	43	76	3	124	42	19	9	28	1.82
1688039--1688158	42	2.9	42	80	6	145	35	18	12	34	1.88
1688167--1688228	29	2.1	29	90	0	97	35	22	9	32	1.87
1688674--1688718	2	22.5	2	100	0	90	0	0	48	51	1.00
1690175--1690212	2	19.0	2	100	0	76	0	50	0	50	1.00
1690466--1690539	24	3.1	24	96	0	139	40	16	14	28	1.88
1694807--1694839	2	16.5	2	93	0	57	54	0	45	0	0.99
1696216--1696270	2	27.5	2	100	0	110	50	0	49	0	1.00
1696595--1696723	49	2.7	49	87	3	181	54	19	13	13	1.71
1698109--1698159	21	2.8	17	76	21	57	52	3	7	35	1.49
1698100--1698152	21	2.5	21	93	0	88	49	5	9	35	1.59
1705144--1705177	17	2.1	17	94	5	61	29	14	17	38	1.90
1713237--1713862	80	7.8	80	94	3	1089	46	9	10	32	1.72
1713244--1713365	37	3.1	37	62	13	91	48	8	10	32	1.67
1713237--1713859	326	1.9	323	94	4	1098	46	9	10	32	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1713863--1713892	13	2.3	13	100	0	60	40	23	6	30	1.80
1716224--1716257	2	16.5	2	93	6	59	50	0	0	47	1.01
1720756--1720789	15	2.2	16	89	5	52	50	20	0	29	1.49

Tables:   1   2   3   4   5

The End!