genome.fa.s145.2.7.7.80.10.50.1000.9.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: Scaffold145
Parameters: 2 7 7 80 10 50 1000
Length:  2608604

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  9  of  15  ( 1729 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)
1584016--1584179	69	2.3	68	78	14	165	59	0	0	39	1.06
1584662--1584724	25	2.5	25	76	7	65	44	3	1	50	1.27
1584982--1585047	33	2.0	33	90	0	105	42	21	15	21	1.89
1585716--1585748	2	17.0	2	87	6	50	51	0	0	48	1.00
1586018--1586052	13	2.6	13	90	4	52	45	8	2	42	1.49
1591021--1591064	22	2.0	22	95	0	79	29	0	4	65	1.12
1592108--1592170	33	1.9	33	86	0	90	55	0	0	44	0.99
1592108--1592167	19	3.4	19	71	21	58	55	0	0	45	0.99
1592154--1592195	21	2.0	20	86	4	57	59	0	0	40	0.97
1593124--1593167	2	22.0	2	85	0	61	54	2	0	43	1.12
1593167--1593200	2	17.0	2	93	0	59	52	0	47	0	1.00
1603253--1603337	45	2.0	42	86	11	120	22	15	21	41	1.90
1608879--1609123	123	2.0	125	89	3	377	46	12	16	24	1.81
1609218--1609248	14	2.2	14	94	0	53	80	9	3	6	0.99
1612722--1612808	2	45.0	2	77	15	67	50	1	3	44	1.26
1617529--1617568	2	20.0	2	100	0	80	50	0	0	50	1.00
1618144--1618185	2	21.0	2	90	0	66	52	2	0	45	1.13
1618174--1618322	76	2.0	76	98	0	289	42	18	7	31	1.77
1618635--1618668	16	2.2	16	89	5	52	44	0	0	55	0.99
1619529--1619573	12	3.8	12	82	8	56	35	0	0	64	0.94
1619537--1619622	28	3.2	28	72	21	78	41	0	0	58	0.98
1619539--1619631	25	3.6	27	75	17	83	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619768--1619822	20	2.5	22	83	13	62	67	0	1	30	1.01
1621408--1621449	2	21.0	2	100	0	84	50	0	0	50	1.00
1623160--1623229	34	2.1	34	100	0	140	41	8	11	38	1.72
1629824--1629910	15	5.7	15	77	5	75	34	2	3	59	1.27
1630828--1630962	72	1.9	72	85	3	191	48	8	5	36	1.59
1632705--1632740	2	18.0	2	100	0	72	50	0	0	50	1.00
1635429--1635474	3	15.3	3	100	0	92	0	32	0	67	0.91
1637519--1637549	16	1.9	16	93	0	53	32	0	0	67	0.91
1641217--1641241	13	1.9	13	100	0	50	80	0	16	4	0.87
1646781--1646823	22	1.9	22	85	4	59	41	0	2	55	1.12
1648609--1648680	37	1.9	37	91	0	117	27	20	8	43	1.81
1650127--1650191	10	6.8	10	73	16	50	38	1	0	60	1.07
1650140--1650198	12	4.7	12	72	25	50	37	1	1	59	1.18
1650130--1650199	21	3.5	21	75	18	85	38	1	1	58	1.16
1650658--1650769	25	4.6	24	67	21	63	41	0	0	56	1.11
1650731--1650796	14	4.7	13	71	15	51	45	0	0	54	0.99
1650713--1650796	29	2.9	29	81	11	102	45	0	0	54	0.99
1650684--1650759	23	3.3	23	73	14	75	40	1	1	56	1.16
1651839--1651879	2	20.5	2	100	0	82	51	0	0	48	1.00
1652542--1652587	19	2.3	19	92	7	74	41	2	0	56	1.11
1652551--1652657	32	3.2	32	72	17	94	48	1	0	49	1.12
1655197--1655245	22	2.2	23	92	3	82	24	18	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656088--1656132	21	2.1	21	84	8	56	48	0	0	51	1.00
1658518--1658547	14	2.1	15	93	6	53	76	0	0	23	0.78
1660594--1660642	13	3.3	16	75	18	52	40	0	0	59	0.98
1660602--1660677	26	2.9	27	81	13	88	46	0	0	53	1.00
1661015--1661089	27	2.6	28	80	16	75	54	1	1	42	1.17
1661009--1661077	29	2.4	28	81	11	70	56	0	1	42	1.08
1661141--1661191	26	2.0	25	84	3	66	27	1	1	68	1.11
1661568--1661635	36	1.9	35	87	3	100	39	0	2	57	1.14
1661775--1661827	25	2.2	24	83	10	63	33	16	3	45	1.66
1662567--1662598	2	16.0	2	100	0	64	50	0	0	50	1.00
1662857--1662890	18	1.9	17	88	5	50	70	0	5	23	1.09
1663248--1663289	2	21.0	2	90	0	66	45	0	4	50	1.23
1667451--1667491	2	20.5	2	100	0	82	48	0	0	51	1.00
1668979--1669016	18	2.1	18	90	9	60	34	0	0	65	0.93
1669545--1669588	19	2.2	20	88	8	63	63	2	0	34	1.07
1669545--1669607	20	3.2	19	80	6	63	63	1	1	33	1.13
1671259--1671294	2	18.0	2	94	0	63	47	2	0	50	1.15
1671366--1671408	2	21.5	2	100	0	86	51	0	0	48	1.00
1671729--1671988	127	2.1	126	96	1	477	32	1	10	56	1.40
1671783--1672012	127	1.8	124	88	2	280	33	1	11	53	1.47
1672069--1672142	17	4.1	19	75	19	61	60	1	0	37	1.05
1672066--1672167	19	5.6	17	72	16	62	60	0	0	38	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1672727--1672757	7	4.4	7	91	0	53	58	0	0	41	0.98
1673491--1673560	19	3.2	22	72	27	60	54	0	0	45	0.99
1674248--1674304	29	2.0	29	82	3	71	52	0	0	47	1.00
1674773--1674812	20	2.2	17	86	13	53	0	20	0	80	0.72
1674931--1674990	29	2.0	30	81	9	70	10	25	5	60	1.49
1680071--1680116	19	2.4	19	85	0	56	58	0	0	41	0.98
1681100--1681144	23	2.0	23	91	4	74	51	0	2	46	1.13
1688419--1688464	23	2.0	23	95	4	85	10	8	26	54	1.64
1701940--1702014	31	2.4	31	95	0	132	40	12	16	32	1.84
1704017--1704056	2	20.0	2	100	0	80	50	0	0	50	1.00
1704565--1704601	17	2.1	19	85	10	51	35	2	2	59	1.26
1706253--1706300	2	24.0	2	82	0	51	47	4	4	43	1.41
1708513--1708549	3	12.0	3	94	5	65	32	0	0	67	0.91
1712573--1712629	27	2.2	26	84	6	71	47	1	0	50	1.11
1712581--1712637	27	2.1	28	90	3	89	49	0	0	50	1.00
1712629--1712668	15	2.7	14	85	11	53	55	5	0	40	1.22
1713251--1713316	28	2.3	29	78	17	75	53	0	0	46	1.00
1714428--1714468	2	21.0	2	95	5	75	51	0	0	48	1.00
1714543--1714571	4	7.2	4	100	0	58	24	0	0	75	0.80
1715705--1715756	4	13.0	4	78	15	54	53	1	0	44	1.11
1715704--1715756	20	2.6	20	77	14	63	54	1	0	43	1.11
1715663--1715756	37	2.5	40	76	15	99	53	1	0	45	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716987--1717093	37	3.2	37	65	27	110	40	0	4	55	1.21
1716976--1717102	63	2.0	64	93	1	220	39	0	5	54	1.29
1717242--1717324	19	4.3	19	73	8	60	36	2	0	61	1.09
1719497--1719533	2	18.5	2	100	0	74	51	0	0	48	1.00
1719739--1719788	14	3.5	14	81	5	64	30	0	2	68	1.01
1724849--1724897	23	2.2	22	81	3	53	44	6	0	48	1.27
1729193--1729236	4	11.0	4	90	0	70	27	2	25	45	1.65
1731416--1731481	18	3.7	18	77	0	60	27	33	7	31	1.85
1732700--1732731	3	10.7	3	100	0	64	68	31	0	0	0.90
1734323--1734371	12	4.0	13	82	15	52	26	2	0	71	0.97
1743601--1743650	22	2.3	22	83	13	59	54	4	0	42	1.19
1744999--1745054	25	2.2	25	84	9	69	50	0	0	50	1.00
1745711--1745766	23	2.5	21	80	8	58	48	1	1	48	1.22
1746830--1746874	21	2.1	21	100	0	90	44	13	4	37	1.64
1748326--1748354	6	4.8	6	100	0	58	0	51	0	48	1.00
1751056--1751141	38	2.3	38	91	0	136	33	11	25	29	1.91
1756571--1756601	16	2.0	16	93	6	55	25	16	6	51	1.68
1756710--1757245	268	2.0	267	97	0	1000	24	16	24	34	1.95
1757218--1757537	166	1.9	166	97	0	604	28	15	15	40	1.88
1759235--1759281	25	1.9	24	86	4	67	72	2	19	6	1.17
1760725--1760755	2	15.5	2	100	0	62	48	0	0	51	1.00
1761416--1761452	11	3.2	12	88	11	51	59	8	8	24	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1761522--1761582	19	3.2	20	82	11	76	78	8	13	0	0.95
1761528--1761579	12	4.2	12	78	4	50	78	7	13	0	0.94
1763980--1764004	13	1.9	13	100	0	50	24	12	0	64	1.27
1775476--1775574	28	3.5	27	79	9	83	43	0	1	55	1.06
1775497--1775574	28	2.7	27	81	16	95	43	0	0	56	0.99
1775794--1775849	22	2.5	22	78	16	62	62	0	3	33	1.12
1775839--1775898	18	3.6	18	67	28	51	55	3	1	40	1.27
1776713--1776741	3	9.7	3	100	0	58	65	0	0	34	0.93
1778464--1778496	2	16.5	2	100	0	66	48	0	0	51	1.00
1779947--1779982	2	18.0	2	88	0	54	55	0	44	0	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15