genome.fa.s156.2.7.7.80.10.50.1000.8.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: Scaffold156
Parameters: 2 7 7 80 10 50 1000
Length:  2697547

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  8  of  14  ( 1602 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)
1559366--1559481	58	2.0	60	83	8	148	37	0	3	58	1.15
1564213--1564280	33	2.2	32	84	7	86	44	1	2	51	1.25
1567895--1567926	8	4.2	8	84	15	50	34	0	0	65	0.93
1567896--1567922	14	1.9	14	100	0	54	29	0	0	70	0.88
1568994--1569045	21	2.5	21	81	6	61	36	1	0	61	1.07
1578691--1578719	2	14.5	2	100	0	58	48	0	0	51	1.00
1579437--1579490	21	2.6	21	81	0	72	72	0	1	25	0.95
1586730--1586767	2	19.0	2	100	0	76	0	50	0	50	1.00
1588687--1588749	27	2.3	28	97	2	119	25	3	19	52	1.60
1588689--1588761	28	2.5	29	84	15	105	24	2	19	53	1.58
1592221--1592282	2	30.5	2	90	3	97	45	0	4	50	1.23
1593386--1593415	14	2.1	14	93	0	51	56	0	0	43	0.99
1595493--1595548	22	2.4	23	77	16	62	60	0	0	39	0.97
1595518--1595587	8	8.4	8	71	20	54	58	0	0	41	0.98
1595497--1595588	32	2.8	32	84	9	107	57	0	0	42	0.98
1595493--1595626	61	2.3	58	78	14	143	55	0	0	44	1.05
1595497--1595601	33	3.2	32	82	10	115	57	0	0	42	0.99
1595527--1595607	33	2.4	33	87	10	119	55	0	0	44	0.99
1595544--1595595	15	3.3	15	78	17	61	51	0	0	48	1.00
1595543--1595624	17	4.7	18	72	28	63	52	0	1	46	1.08
1595978--1596021	3	14.7	3	100	0	88	34	0	0	65	0.93
1599769--1599802	14	2.6	14	90	9	54	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1600544--1600692	21	7.2	21	73	5	88	35	7	6	51	1.55
1600627--1600699	11	6.9	11	74	13	55	38	4	2	54	1.34
1600678--1600773	41	2.3	42	80	1	113	34	2	9	54	1.45
1600714--1600806	11	8.4	11	69	19	50	31	4	10	53	1.55
1600661--1600770	21	5.3	21	75	7	91	32	3	9	54	1.49
1600846--1600942	20	4.8	20	71	18	76	32	4	8	54	1.49
1601624--1601650	3	9.0	3	100	0	54	33	33	33	0	1.58
1604083--1604115	14	2.4	14	90	10	50	0	12	0	87	0.53
1604627--1604662	3	12.0	3	100	0	72	66	0	0	33	0.92
1606226--1606257	2	16.0	2	100	0	64	50	0	0	50	1.00
1606980--1607016	11	3.5	11	89	10	51	2	10	0	86	0.67
1607325--1607365	21	2.0	21	95	0	73	60	4	7	26	1.43
1612849--1612898	11	4.5	11	76	14	50	22	4	2	72	1.12
1613025--1613056	17	1.9	17	93	6	57	62	0	3	34	1.11
1613840--1613979	18	8.3	18	67	25	51	57	0	1	41	1.08
1613856--1614020	11	15.4	11	69	20	68	60	0	1	38	1.09
1613889--1614001	32	3.3	33	83	10	129	59	0	0	40	0.97
1613867--1614032	23	7.0	25	70	21	92	60	0	0	38	1.01
1613889--1613971	33	2.5	32	90	3	121	57	0	0	42	0.98
1613877--1614005	8	16.4	8	70	23	55	61	0	0	38	0.96
1613867--1614010	29	4.9	29	74	18	95	61	0	0	38	0.96
1613894--1614025	8	16.0	8	67	22	69	59	0	0	39	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1613922--1614032	27	4.0	26	76	15	107	61	0	0	37	1.02
1613983--1614025	19	2.4	18	88	7	61	65	2	0	32	1.06
1614698--1614735	9	4.3	9	86	3	51	21	2	0	76	0.91
1615762--1615804	2	21.5	2	100	0	86	48	0	0	51	1.00
1616534--1616644	55	2.0	55	100	0	222	24	14	19	41	1.89
1628047--1628115	26	2.6	27	80	13	74	57	0	0	42	0.98
1633715--1633788	28	2.7	27	78	14	78	56	4	0	39	1.18
1634342--1634415	15	4.9	15	77	11	71	37	0	0	62	0.96
1634514--1634548	13	2.8	12	91	8	61	60	0	0	40	0.97
1641782--1641884	52	2.0	52	94	0	179	27	24	9	38	1.86
1643313--1643359	24	2.0	25	83	8	62	48	0	4	46	1.21
1652304--1652336	11	3.0	11	86	13	50	54	0	3	42	1.15
1652304--1652348	21	2.1	22	84	12	58	55	0	2	42	1.12
1652714--1652914	34	5.9	34	83	1	251	25	7	25	40	1.83
1653218--1653280	19	3.3	19	90	0	90	28	17	19	34	1.94
1657346--1657563	34	6.5	34	84	1	269	26	7	25	40	1.81
1657346--1657565	67	3.3	66	83	2	287	25	7	25	40	1.81
1657346--1657565	101	2.2	101	89	4	336	25	7	25	40	1.81
1665405--1665455	25	2.0	25	96	0	93	21	27	5	45	1.75
1671001--1671038	14	2.9	14	80	11	53	50	0	0	50	1.00
1672082--1672135	15	3.7	15	80	4	67	51	0	0	48	1.00
1672208--1672270	29	2.0	33	82	11	80	53	4	3	38	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1672263--1672322	27	2.3	26	83	11	70	60	1	5	33	1.29
1672796--1672833	13	2.9	13	84	7	51	73	0	0	26	0.83
1672789--1672837	15	3.2	15	82	8	55	75	0	0	24	0.80
1672824--1672904	32	2.4	33	79	8	92	56	4	1	37	1.29
1672864--1672921	27	2.1	27	81	12	66	53	0	0	46	1.00
1673482--1673555	27	2.7	27	78	0	85	45	21	5	27	1.73
1675431--1675476	21	2.1	22	84	4	58	19	30	19	30	1.97
1677942--1677975	13	2.5	13	90	4	50	32	5	44	17	1.73
1678051--1678124	27	2.7	27	82	0	85	47	17	6	28	1.73
1683425--1683517	16	5.8	16	72	8	73	54	1	3	40	1.23
1683486--1683526	6	6.8	6	81	18	50	48	0	0	51	1.00
1683488--1683522	17	2.1	16	94	5	61	45	0	0	54	0.99
1683486--1683532	23	2.0	23	88	8	69	48	0	0	51	1.00
1683481--1683545	28	2.4	26	81	18	80	52	0	0	47	1.00
1683939--1683983	16	2.8	16	93	0	72	53	2	0	44	1.13
1683976--1684017	15	2.6	17	81	11	61	45	7	7	40	1.59
1685715--1685754	16	2.6	16	80	4	55	52	0	0	47	1.00
1703058--1703082	2	12.5	2	100	0	50	52	48	0	0	1.00
1706139--1706171	16	2.1	16	88	11	50	30	3	24	42	1.70
1706318--1706419	38	2.8	35	79	16	100	29	12	17	40	1.87
1706403--1706498	38	2.5	38	82	0	111	29	10	18	41	1.84
1706654--1706691	13	2.6	14	84	15	51	31	7	2	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708097--1708299	50	4.1	50	90	0	298	28	21	18	31	1.97
1708539--1708584	19	2.4	19	85	0	65	23	23	21	30	1.99
1712679--1712828	75	2.0	75	92	0	246	28	22	14	34	1.94
1712754--1712906	50	3.1	50	86	0	225	26	20	18	33	1.96
1720953--1720979	13	2.1	13	100	0	54	44	14	0	40	1.46
1724327--1724356	11	2.7	11	94	0	51	10	23	13	53	1.69
1728539--1728627	27	3.4	26	75	7	83	47	19	7	25	1.76
1728542--1728659	27	4.5	26	73	12	80	48	16	7	27	1.73
1736909--1736942	2	17.0	2	100	0	68	50	0	0	50	1.00
1739796--1739831	17	2.1	17	94	0	63	38	19	2	38	1.66
1739968--1740106	75	1.9	75	89	0	215	40	17	12	30	1.86
1740006--1740144	75	1.9	75	80	6	165	41	16	10	30	1.83
1740637--1740666	15	2.0	15	93	0	51	26	23	6	43	1.78
1740734--1740771	20	1.9	20	94	0	67	36	23	7	31	1.84
1741373--1741411	20	1.9	20	94	5	69	25	5	5	64	1.35
1745458--1745492	7	4.9	7	89	6	52	22	31	28	17	1.96
1750724--1750767	7	6.3	7	91	0	70	18	27	38	15	1.91
1750581--1751757	180	6.8	166	83	13	1442	41	12	13	32	1.81
1750762--1751233	152	3.0	152	95	4	809	43	11	12	33	1.78
1751229--1751265	7	5.3	7	93	0	56	21	29	35	13	1.92
1751080--1751855	180	4.3	180	91	2	1240	40	12	14	31	1.83
1751585--1751619	7	5.0	7	89	0	52	20	25	40	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1751081--1751848	356	2.1	360	91	3	1249	40	12	14	32	1.83
1752452--1752527	38	2.0	38	97	0	143	26	23	22	27	1.99
1753143--1753194	24	2.2	23	86	3	68	80	1	17	0	0.80
1753160--1753194	8	4.7	7	89	10	52	82	0	17	0	0.66
1753142--1753194	17	3.2	16	78	10	54	81	1	16	0	0.79
1753163--1753192	15	1.9	16	93	6	53	80	0	20	0	0.72
1753594--1753628	17	2.1	17	100	0	70	51	8	34	5	1.56
1753779--1753816	11	3.2	12	81	11	51	26	2	2	68	1.16
1754348--1754383	19	1.9	19	88	5	56	16	5	5	72	1.23
1754577--1754609	16	2.0	17	94	5	59	72	0	0	27	0.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14