genome.fa.s552.2.7.7.80.10.50.1000.5.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: scaffold90
Parameters: 2 7 7 80 10 50 1000
Length:  1707176

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 568 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)
1522506--1522557	23	2.3	22	78	15	52	17	11	3	67	1.36
1522799--1522841	21	2.0	21	100	0	86	13	23	39	23	1.90
1527558--1527888	69	4.8	69	78	5	285	40	16	21	22	1.91
1527557--1527888	138	2.4	137	77	6	339	40	16	21	21	1.91
1538619--1538657	19	2.1	19	90	0	60	71	7	2	17	1.21
1549772--1549842	27	2.6	27	80	8	81	33	16	30	18	1.93
1560444--1560578	40	3.4	40	83	9	163	38	22	19	19	1.93
1560618--1560730	41	2.8	41	91	0	190	20	21	24	33	1.97
1561002--1561140	14	9.7	14	74	9	84	19	1	33	46	1.59
1561068--1561109	22	2.0	21	90	4	66	16	0	33	50	1.46
1561101--1561140	21	1.9	21	89	0	62	20	0	37	42	1.52
1561002--1561113	7	15.7	7	73	10	75	18	1	31	48	1.59
1561788--1561922	40	3.4	40	83	9	163	38	22	19	19	1.93
1561962--1562074	41	2.8	41	91	0	190	20	21	24	33	1.97
1562360--1562393	15	2.3	15	90	5	52	20	0	35	44	1.52
1562380--1562420	21	2.0	20	85	4	55	19	0	41	39	1.52
1562388--1562445	15	3.9	15	81	2	73	20	0	44	34	1.52
1562409--1562459	23	2.2	24	89	3	77	17	1	47	33	1.59
1567242--1567314	27	2.7	25	75	14	65	27	5	1	65	1.22
1567503--1567796	43	6.8	43	85	2	169	25	17	29	27	1.97
1567483--1567774	86	3.4	84	79	7	275	25	17	30	27	1.97
1567544--1567796	86	2.9	85	84	2	317	25	17	30	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567500--1567796	129	2.3	130	82	2	375	25	17	30	27	1.97
1571964--1572173	91	2.3	91	85	2	278	40	12	13	33	1.82
1572084--1572145	29	2.1	31	93	6	110	41	17	11	29	1.84
1572550--1572673	29	4.1	29	69	11	106	41	16	12	29	1.85
1573458--1573502	3	15.0	3	100	0	90	33	0	0	66	0.92
1573284--1573710	217	2.0	218	99	0	847	39	7	7	45	1.61
1573675--1573710	3	12.0	3	100	0	72	33	0	0	66	0.92
1574052--1574117	28	2.3	29	82	12	84	59	0	1	39	1.07
1574054--1574111	11	5.9	10	76	15	59	60	0	0	39	0.97
1574072--1574118	18	2.7	18	81	12	53	61	0	2	36	1.08
1574149--1574213	21	3.0	20	81	16	69	66	3	7	23	1.32
1574290--1574343	28	1.9	28	88	7	83	40	0	0	59	0.98
1574303--1574353	21	2.4	22	81	15	63	41	0	0	58	0.98
1574312--1574361	20	2.6	18	84	12	64	38	2	0	60	1.09
1576329--1576375	24	1.9	24	82	4	58	46	4	10	38	1.58
1582920--1583574	334	2.0	334	96	0	1220	24	13	13	48	1.79
1586968--1587053	27	3.3	27	74	18	76	60	3	1	34	1.21
1588046--1588078	13	2.6	13	90	4	50	18	3	27	51	1.60
1594035--1594129	44	2.2	44	94	1	165	24	33	11	30	1.91
1608824--1608852	11	2.5	12	88	11	51	62	0	13	24	1.32
1608827--1608853	11	2.5	11	100	0	54	59	0	14	25	1.36
1609240--1609277	19	2.0	19	94	0	67	47	2	5	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624990--1625023	17	2.0	17	100	0	68	29	17	0	52	1.45
1626733--1626798	25	2.6	25	82	0	78	25	22	24	27	2.00
1631444--1631481	20	1.9	20	88	0	58	23	0	26	50	1.50
1632311--1632367	26	2.2	26	96	0	105	29	17	17	35	1.93
1641033--1641091	30	2.0	30	83	6	75	40	11	16	30	1.85
1641325--1641458	50	2.7	50	82	3	162	24	18	26	30	1.98
1641466--1641556	43	2.1	42	86	6	121	26	15	26	31	1.96
1644437--1644461	8	3.1	8	100	0	50	24	0	0	76	0.80
1653635--1653677	14	3.0	14	86	3	59	44	0	2	53	1.13
1653636--1653679	5	9.2	5	85	7	56	40	0	2	56	1.11
1653640--1653686	15	3.2	14	80	14	51	38	2	4	55	1.31
1656855--1657322	237	2.0	237	92	0	785	25	21	11	40	1.88
1661231--1661274	19	2.5	17	78	10	52	59	6	15	18	1.58
1663693--1663735	20	2.2	20	86	0	59	34	4	11	48	1.60
1665877--1665934	12	4.8	12	80	2	71	51	1	32	13	1.51
1668208--1668278	32	2.2	32	85	7	90	19	12	30	36	1.89
1670012--1670150	56	2.5	57	88	6	198	25	17	6	51	1.69
1670131--1670162	6	5.3	6	100	0	64	15	15	0	68	1.21
1678411--1678558	54	2.6	54	85	10	190	25	14	13	45	1.82
1678775--1678822	18	2.5	19	86	6	62	12	6	8	72	1.26
1679020--1679056	19	2.0	19	89	5	58	27	16	0	56	1.40
1680665--1680728	32	2.0	32	100	0	128	37	6	12	43	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1681355--1681401	24	2.0	24	86	0	67	46	4	4	44	1.42
1683938--1683989	23	2.3	23	86	0	68	36	1	13	48	1.54
1683970--1684025	13	4.5	13	82	13	82	33	1	16	48	1.56
1683957--1684025	36	1.9	36	93	0	120	36	1	14	47	1.53
1684678--1684884	69	3.0	69	100	0	414	31	11	31	24	1.91
1684726--1684832	33	3.2	33	62	25	78	32	11	33	22	1.89
1692220--1692264	13	3.7	13	82	17	69	37	0	15	46	1.46
1692213--1692264	23	2.3	23	89	0	77	36	0	15	48	1.45
1692222--1692266	23	2.0	23	100	0	90	35	0	17	46	1.49
1693663--1693690	6	4.7	6	100	0	56	32	0	0	67	0.91
1702972--1703235	30	9.9	30	75	24	295	38	0	32	28	1.57
1703002--1703049	22	2.2	22	96	0	87	39	0	35	25	1.56
1702965--1703256	52	5.6	52	100	0	584	38	0	32	28	1.57
1703054--1703101	22	2.2	22	96	0	87	39	0	35	25	1.56
1703106--1703153	22	2.2	22	96	0	87	39	0	35	25	1.56
1703158--1703205	22	2.2	22	96	0	87	39	0	35	25	1.56
1703210--1703256	22	2.1	22	96	0	85	40	0	34	25	1.56
1703389--1703481	42	2.3	40	80	14	102	16	32	29	22	1.95
1706144--1706204	20	3.0	20	88	4	79	47	0	14	37	1.45
1706143--1706180	5	7.6	5	100	0	76	39	0	18	42	1.50
1706309--1706347	19	2.1	19	85	9	53	41	10	0	48	1.37
1706838--1706880	16	2.9	14	83	10	59	55	4	0	39	1.20

Tables:   1   2   3   4   5

The End!