genome.fa.s782.2.7.7.80.10.50.1000.6.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: scaffold45
Parameters: 2 7 7 80 10 50 1000
Length:  1930935

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 749 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)
1599200--1599376	81	2.2	81	98	1	347	28	6	7	56	1.54
1617744--1617776	17	1.9	17	88	11	50	57	3	15	24	1.52
1618822--1618879	26	2.2	26	87	0	80	17	24	22	36	1.95
1618832--1618888	26	2.2	26	84	3	71	19	22	22	35	1.96
1618909--1618960	25	2.1	25	85	7	70	17	28	23	30	1.97
1619007--1619069	25	2.5	25	82	5	74	25	25	15	33	1.95
1625724--1625772	25	2.0	25	84	8	64	67	4	2	26	1.19
1625796--1625849	24	2.2	24	87	6	74	57	7	3	31	1.44
1626869--1627470	50	12.2	50	79	3	547	24	18	22	33	1.97
1626869--1627470	150	4.1	150	80	3	626	24	18	22	33	1.97
1627170--1627430	143	1.8	143	84	0	360	25	17	21	34	1.95
1634800--1634853	24	2.2	24	87	6	74	57	7	3	31	1.44
1636400--1636556	38	4.2	38	86	0	208	33	31	22	13	1.92
1643534--1643560	13	2.1	13	100	0	54	62	7	0	29	1.22
1651246--1651279	17	2.0	17	88	0	50	79	5	2	11	1.02
1652504--1652549	19	2.4	19	88	0	65	32	23	13	30	1.93
1652504--1652558	19	2.9	19	83	0	56	30	23	14	30	1.94
1652762--1652806	22	2.0	22	100	0	90	33	35	0	31	1.58
1658732--1658849	43	2.8	41	73	10	121	33	26	15	24	1.95
1665954--1666045	47	2.0	45	95	0	148	32	6	10	47	1.64
1666041--1666075	2	17.5	2	100	0	70	48	0	0	51	1.00
1666159--1666199	22	2.0	20	85	9	55	60	12	0	26	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1666407--1666492	45	1.9	45	82	0	109	41	8	3	46	1.50
1694553--1694720	51	3.3	51	99	0	329	38	19	7	33	1.81
1696798--1696908	21	5.3	21	72	8	75	21	31	19	27	1.98
1696813--1696950	63	2.2	63	93	0	240	18	32	19	28	1.96
1696814--1696931	21	5.7	20	73	11	94	17	33	21	27	1.96
1697483--1697547	7	8.5	8	90	9	93	44	41	0	13	1.44
1697483--1697547	15	4.3	15	88	11	89	44	41	0	13	1.44
1697850--1697897	24	2.0	24	95	0	87	35	8	18	37	1.81
1699295--1699342	20	2.3	20	82	3	60	66	0	2	31	1.03
1699994--1700436	218	2.0	219	99	0	872	33	16	18	31	1.93
1702336--1702428	48	1.9	48	89	4	143	21	24	7	46	1.77
1703807--1703854	18	2.5	19	86	6	62	20	25	2	52	1.58
1704688--1704779	40	2.3	40	96	0	166	41	20	4	33	1.72
1705509--1705541	17	1.9	17	93	0	57	39	12	0	48	1.40
1715453--1715555	45	2.3	45	80	6	120	37	12	23	26	1.90
1721987--1722027	18	2.4	18	88	8	59	63	0	12	24	1.28
1726520--1726567	25	1.9	25	95	0	87	10	0	39	50	1.37
1732369--1732404	18	2.1	18	94	5	65	50	2	11	36	1.53
1734194--1734284	40	2.3	38	86	5	119	45	28	15	10	1.80
1742512--1742657	77	1.9	77	91	1	240	34	13	8	43	1.74
1742512--1742719	79	2.7	76	84	5	249	34	12	9	43	1.75
1743641--1743678	16	2.4	16	90	0	58	31	0	34	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1743657--1743766	45	2.6	43	80	9	129	33	5	29	31	1.80
1747212--1747391	76	2.4	77	77	10	188	38	9	11	40	1.74
1749456--1749503	24	2.0	23	88	4	69	37	4	12	45	1.61
1754006--1754031	7	3.7	7	100	0	52	57	0	0	42	0.98
1755625--1755665	21	2.0	21	85	9	57	58	2	0	39	1.11
1755948--1755995	21	2.3	21	82	10	62	58	4	0	37	1.18
1755948--1755990	22	2.0	22	86	8	63	62	4	0	32	1.15
1760873--1760918	18	2.6	18	82	0	56	39	8	30	21	1.84
1761563--1761587	7	3.6	7	100	0	50	60	12	0	28	1.32
1763715--1763747	2	16.5	2	93	0	57	48	0	0	51	1.00
1763740--1764205	232	2.0	233	99	0	916	35	15	12	36	1.86
1767474--1767517	20	2.2	21	88	8	65	38	0	4	56	1.20
1767614--1767684	23	3.0	23	81	4	97	36	2	1	59	1.21
1771432--1771557	40	3.2	38	75	9	119	38	21	17	22	1.93
1771597--1771867	41	6.6	41	86	1	373	17	24	25	32	1.97
1771597--1771867	81	3.3	80	86	2	362	17	24	25	32	1.97
1771597--1771868	122	2.2	124	88	2	395	17	24	25	32	1.97
1775553--1775619	5	13.2	5	75	17	50	20	2	2	73	1.10
1775532--1775632	51	2.0	51	88	1	150	22	4	5	66	1.34
1777635--1777986	43	8.3	42	78	4	330	24	15	29	30	1.96
1777625--1777964	86	4.0	85	84	3	434	24	15	28	30	1.96
1782072--1782138	35	1.9	35	100	0	134	43	5	8	41	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1787377--1787412	17	2.1	17	89	5	54	83	0	13	2	0.76
1791271--1791361	27	3.4	27	76	11	96	21	25	34	18	1.96
1791604--1791638	3	11.7	3	87	0	52	31	0	5	62	1.18
1794108--1794161	27	2.0	27	92	0	90	35	5	16	42	1.72
1794877--1794961	10	8.3	10	73	17	68	0	32	0	67	0.91
1794862--1794967	34	3.0	34	86	9	142	0	32	0	66	0.98
1794857--1794975	38	3.2	38	84	10	158	0	31	0	67	0.97
1794816--1794981	34	4.8	34	74	20	123	0	32	0	66	0.96
1794844--1794976	24	5.6	24	71	13	105	0	32	0	66	0.97
1794935--1794991	24	2.3	24	78	3	60	1	38	0	59	1.08
1795039--1795090	27	1.9	27	92	0	86	19	32	26	21	1.97
1797918--1797992	29	2.6	29	82	8	89	33	25	13	28	1.93
1798818--1798955	32	4.3	32	100	0	276	50	8	23	17	1.74
1806018--1806052	8	4.4	8	100	0	70	34	0	0	65	0.93
1806196--1806230	8	4.4	8	100	0	70	34	0	0	65	0.93
1805982--1806339	178	2.0	179	99	0	709	34	8	17	39	1.80
1811599--1811665	26	2.5	27	88	9	102	37	8	0	53	1.32
1812260--1812289	10	3.0	10	95	0	51	50	3	0	46	1.18
1812159--1812765	246	2.5	248	81	6	660	37	10	6	45	1.64
1812956--1812999	19	2.2	20	88	4	63	40	2	11	45	1.53
1816333--1816376	19	2.3	19	88	7	63	25	20	0	54	1.45
1817722--1817772	26	2.0	26	92	0	84	50	21	17	9	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817683--1817813	68	1.9	67	92	4	219	38	23	19	19	1.93
1817798--1817857	30	2.0	30	87	6	86	20	23	28	28	1.99
1818261--1818318	21	2.8	21	94	0	98	3	36	20	39	1.70
1818260--1818330	21	3.4	21	88	3	90	2	38	19	39	1.67
1825003--1825670	250	2.7	250	97	0	1248	34	8	10	46	1.68
1833989--1834060	16	4.4	17	91	7	121	56	9	0	33	1.32
1834083--1834412	114	2.9	113	78	5	387	27	23	19	30	1.98
1834425--1834702	114	2.5	112	81	6	294	29	24	17	28	1.98
1834635--1834775	74	1.9	73	85	4	194	28	24	18	28	1.98
1834521--1834902	188	2.0	188	85	5	522	26	23	19	30	1.98
1834102--1834905	301	2.7	299	88	4	1177	27	23	18	30	1.98
1836607--1836631	2	12.5	2	100	0	50	52	0	0	48	1.00
1836644--1836682	2	19.5	2	89	10	62	51	2	0	46	1.14
1836770--1836818	22	2.1	24	82	14	59	34	12	0	53	1.39
1842130--1842168	2	19.5	2	89	10	62	51	2	0	46	1.14
1842256--1842304	22	2.1	24	82	14	59	34	12	0	53	1.39
1845665--1845709	18	2.5	18	85	0	63	40	4	17	37	1.70
1847485--1847529	18	2.5	18	85	0	63	40	4	17	37	1.70
1857407--1857439	13	2.4	14	90	10	50	48	0	3	48	1.17
1858224--1858253	12	2.5	12	88	0	51	73	0	10	16	1.09
1872868--1872894	6	4.5	6	100	0	54	62	18	0	18	1.32
1875914--1876111	26	7.5	26	84	4	227	35	12	25	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1876070--1876128	27	2.2	27	78	0	64	38	16	23	20	1.92
1883152--1883184	16	2.0	17	94	5	59	54	0	3	42	1.15
1884826--1884872	22	2.1	22	88	4	67	53	0	8	38	1.32
1885460--1885517	31	1.9	30	86	6	82	75	1	18	3	1.03
1886326--1886606	116	2.4	116	83	5	339	26	26	17	29	1.98
1886613--1886889	45	6.0	45	80	8	324	30	24	14	30	1.95
1886584--1886865	96	3.0	94	84	7	310	28	24	16	30	1.97
1886711--1886950	135	1.8	135	83	4	326	30	24	13	31	1.93
1887237--1887442	88	2.3	87	85	2	268	21	23	28	27	1.99
1887423--1887589	87	1.9	87	88	0	253	23	25	20	29	1.99

Tables:   1   2   3   4   5   6   7