genome.fa.s4079.2.7.7.80.10.50.1000.4.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: scaffold84
Parameters: 2 7 7 80 10 50 1000
Length:  4163231

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

This is table  4  of  11  ( 1218 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)
1508022--1508147	40	3.1	40	73	7	112	31	18	28	21	1.97
1512442--1512473	3	10.7	3	100	0	64	0	34	0	65	0.93
1513375--1513412	8	4.6	8	87	6	58	63	0	2	34	1.09
1513375--1513423	25	2.0	25	88	8	73	61	2	2	34	1.19
1514194--1514227	16	2.2	15	89	5	50	55	0	0	44	0.99
1518216--1518268	23	2.3	23	100	0	106	22	7	35	33	1.83
1532065--1532117	25	2.1	25	82	0	61	28	30	16	24	1.97
1536385--1536414	16	1.9	16	93	6	53	50	20	0	30	1.49
1537542--1537673	25	5.4	24	70	15	90	31	20	22	25	1.98
1537541--1537673	49	2.7	49	83	1	158	30	20	23	25	1.98
1544993--1545018	12	2.2	12	100	0	52	7	30	38	23	1.83
1546280--1546353	25	3.0	25	80	4	78	28	18	21	31	1.97
1547839--1547884	16	2.9	16	78	12	58	47	4	21	26	1.69
1553350--1553523	94	1.9	94	92	0	294	41	15	6	36	1.74
1559064--1559107	23	2.0	22	86	4	61	13	13	11	61	1.57
1571305--1571334	14	2.1	14	93	0	51	56	33	3	6	1.42
1571670--1571714	18	2.6	17	82	6	56	22	11	2	64	1.36
1571750--1571784	14	2.5	14	90	0	61	17	14	0	68	1.21
1582876--1582995	56	2.1	56	86	3	161	31	20	25	22	1.98
1582876--1582995	28	4.3	28	82	0	141	31	20	25	22	1.98
1583318--1583997	27	25.2	27	84	4	732	17	20	19	43	1.89
1583317--1583997	81	8.4	80	84	3	812	17	19	19	43	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594834--1594888	22	2.4	23	82	8	60	32	1	3	61	1.24
1594850--1594894	22	2.0	23	83	12	58	33	4	4	57	1.38
1596699--1596732	16	2.1	17	88	5	52	38	5	20	35	1.77
1600512--1600536	13	1.9	13	100	0	50	60	24	0	16	1.36
1601774--1601837	32	2.0	32	100	0	128	34	21	21	21	1.97
1608653--1608684	16	1.9	17	93	6	57	43	3	12	40	1.58
1618597--1618632	18	2.0	18	89	10	56	19	11	13	55	1.68
1622350--1622398	23	2.1	23	100	0	98	32	4	20	42	1.71
1634874--1634906	13	2.5	13	95	0	57	27	6	6	60	1.44
1634866--1634912	25	1.9	24	83	12	60	23	8	6	61	1.48
1635730--1635819	36	2.4	36	81	9	101	37	10	6	45	1.64
1644190--1644234	23	1.9	24	95	4	83	75	0	15	8	1.03
1644198--1644247	23	2.2	23	82	7	57	72	2	22	4	1.12
1647346--1647424	38	2.1	38	85	4	106	35	11	10	43	1.75
1647463--1647526	28	2.4	26	77	10	67	34	12	12	40	1.81
1656635--1656815	45	4.0	45	97	0	335	33	11	33	22	1.89
1659028--1659078	17	2.8	18	80	11	59	70	3	3	21	1.20
1672533--1672572	17	2.4	17	86	0	53	30	5	32	32	1.79
1680265--1680388	62	2.0	62	100	0	248	20	14	20	43	1.87
1687367--1687772	23	17.5	23	86	1	551	38	19	13	27	1.90
1687367--1687772	117	3.5	115	89	2	562	38	19	13	27	1.90
1688751--1688864	43	2.7	43	81	13	144	28	25	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1694366--1694417	14	3.7	14	79	7	61	1	21	0	76	0.87
1697730--1698483	377	2.0	377	100	0	1508	35	23	8	33	1.84
1710503--1710546	21	2.1	21	95	0	79	9	27	18	45	1.79
1718814--1719132	41	7.8	41	82	4	302	33	15	27	22	1.95
1718818--1719132	82	3.8	82	85	0	405	33	15	28	22	1.95
1718820--1719132	123	2.5	123	84	2	403	33	15	28	22	1.95
1718964--1719063	21	4.9	21	67	8	71	32	17	29	22	1.96
1723865--1724003	50	2.8	50	89	0	188	20	31	23	23	1.98
1725028--1725052	8	3.1	8	100	0	50	28	24	0	48	1.52
1726043--1726871	4	207.2	4	100	0	1658	24	0	24	50	1.50
1727042--1727070	10	2.9	10	100	0	58	31	6	10	51	1.62
1727805--1727978	42	4.2	42	84	0	233	30	18	20	29	1.97
1734625--1734659	13	2.7	13	100	0	70	60	0	0	40	0.97
1741209--1741243	2	17.5	2	93	0	61	0	51	0	48	1.00
1744186--1744257	3	24.0	3	97	0	135	31	0	1	66	1.00
1746688--1746761	9	8.2	9	78	0	67	28	9	0	62	1.26
1746688--1746761	6	12.3	6	86	0	67	28	9	0	62	1.26
1755928--1755976	9	5.4	9	92	0	71	40	22	10	26	1.86
1755928--1755981	27	2.0	28	88	3	83	40	22	11	25	1.87
1755984--1756047	17	3.6	17	70	12	56	50	12	3	34	1.56
1756181--1756297	38	3.0	39	93	4	202	17	2	29	50	1.59
1756278--1756315	13	2.9	13	96	0	67	15	0	44	39	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1758446--1758495	26	1.9	26	83	0	64	48	28	6	18	1.71
1765327--1765361	3	11.7	3	93	0	61	37	0	31	31	1.58
1766768--1766928	54	3.0	54	77	3	155	24	29	21	24	1.99
1769493--1769523	15	2.1	15	93	0	53	64	9	0	25	1.24
1777931--1778013	36	2.3	37	79	6	98	34	27	9	27	1.88
1782218--1782247	11	2.7	11	100	0	60	63	0	0	36	0.95
1782434--1782480	17	2.7	17	78	15	51	57	0	0	42	0.98
1782819--1783281	229	2.0	230	98	1	894	44	8	7	39	1.62
1784928--1784969	22	1.9	22	90	9	68	42	11	0	45	1.41
1796567--1796610	22	2.0	22	90	0	70	29	9	29	31	1.88
1797586--1797662	32	2.4	32	84	4	111	29	14	24	31	1.94
1797621--1797751	61	2.1	61	81	0	145	31	19	23	25	1.98
1797519--1797721	93	2.2	93	78	1	219	32	15	24	27	1.96
1805384--1805482	41	2.4	41	80	10	110	30	21	17	31	1.96
1823737--1823782	6	7.7	6	97	0	74	10	0	4	84	0.75
1828012--1828057	10	4.5	10	91	2	74	47	21	0	30	1.51
1832513--1832597	9	9.4	9	78	5	91	25	10	20	43	1.83
1836292--1836322	15	2.1	15	93	0	53	58	12	6	22	1.58
1853463--1853653	103	1.8	103	89	1	301	29	8	21	39	1.84
1857484--1857536	13	4.0	13	80	2	52	73	1	18	5	1.12
1865092--1865119	6	4.7	6	100	0	56	0	0	14	85	0.59
1866348--1866718	190	2.0	190	89	1	564	37	16	15	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1880633--1880667	19	1.9	19	88	11	56	31	37	0	31	1.58
1883955--1883981	14	1.9	14	100	0	54	48	22	7	22	1.75
1884818--1884868	25	2.0	26	84	3	68	35	17	1	45	1.60
1887286--1887328	19	2.2	20	88	12	63	39	0	6	53	1.28
1888466--1888502	19	2.0	18	94	5	65	67	0	0	32	0.91
1888784--1888828	22	2.2	20	88	8	63	22	20	8	48	1.76
1903044--1903109	27	2.4	27	87	0	87	34	10	28	25	1.89
1912608--1912639	13	2.5	13	94	0	55	56	15	6	21	1.62
1914913--1915029	51	2.3	50	80	5	128	37	12	15	34	1.86
1914913--1915044	50	2.6	52	75	6	135	37	12	14	35	1.83
1917716--1917750	17	2.0	17	88	5	52	20	14	0	65	1.26
1917780--1917804	12	2.1	12	100	0	50	16	0	8	76	1.02
1931642--1933085	721	2.0	721	100	0	2888	33	14	23	28	1.93
1935856--1936077	104	2.1	104	88	0	336	31	22	14	31	1.94
1936043--1936117	36	2.1	36	84	0	96	28	22	16	33	1.95
1939411--1939450	21	2.0	20	85	5	53	37	2	7	52	1.43
1939411--1939466	18	2.8	21	82	15	66	35	1	5	57	1.32
1939424--1939486	20	3.2	19	82	13	65	30	0	6	63	1.19
1939433--1939527	49	2.0	48	83	10	122	32	0	4	63	1.14
1939483--1939539	21	2.8	20	82	7	71	33	0	5	61	1.18
1943577--1943925	76	4.6	76	97	0	635	45	10	6	38	1.62
1944449--1944515	34	1.9	35	84	3	91	44	16	8	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1954066--1954174	56	1.9	56	96	0	200	45	7	24	22	1.77
1955094--1955129	16	2.2	16	90	5	54	69	0	0	30	0.89
1956455--1956516	26	2.3	26	81	8	72	58	0	6	35	1.24
1958074--1958634	44	13.2	42	71	12	328	25	19	23	31	1.98
1958046--1958635	127	4.6	127	89	0	869	25	20	22	31	1.98
1958075--1958634	40	13.2	41	70	12	249	25	19	23	31	1.98
1958263--1958634	87	4.4	86	72	10	278	25	20	22	31	1.98
1958623--1959767	90	12.6	90	74	13	586	29	22	17	29	1.97
1958623--1959767	135	8.4	136	72	14	658	29	22	17	29	1.97
1958623--1959101	45	10.7	46	83	7	567	31	23	15	29	1.95

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