genome.fa.s496.2.7.7.80.10.50.1000.4.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: Scaffold496
Parameters: 2 7 7 80 10 50 1000
Length:  765014

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 825 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)
265263--265325	32	2.0	32	96	0	117	34	12	15	36	1.86
265347--265413	33	2.0	33	88	0	98	25	14	16	43	1.86
265367--265392	13	2.0	13	100	0	52	30	15	15	38	1.88
267865--268087	52	4.3	51	81	7	225	30	24	11	32	1.91
268070--268151	28	2.9	28	80	10	80	24	31	17	26	1.97
269850--269929	18	4.6	17	72	20	60	55	0	1	43	1.08
270391--270425	2	17.5	2	100	0	70	0	48	0	51	1.00
276103--276145	22	2.0	22	90	9	70	53	0	0	46	1.00
276687--276732	19	2.5	19	83	16	62	52	0	0	47	1.00
276853--276898	20	2.4	19	82	14	58	34	0	0	65	0.93
276852--276903	18	2.8	19	81	13	65	34	0	0	65	0.93
277821--277877	17	3.7	16	69	23	50	49	1	0	49	1.11
277812--277872	29	2.1	28	87	3	86	45	1	0	52	1.10
278432--278462	2	15.5	2	100	0	62	48	0	51	0	1.00
279285--279322	17	2.2	18	85	4	51	42	7	7	42	1.63
279334--279360	11	2.5	11	100	0	54	33	0	0	66	0.92
279890--279918	2	14.5	2	100	0	58	51	0	0	48	1.00
281173--281277	11	9.5	11	72	17	51	56	0	1	40	1.17
281887--281941	14	3.4	16	76	20	60	41	0	0	58	0.98
281897--281947	14	3.4	14	78	19	57	45	0	0	54	0.99
281884--281947	32	2.0	33	90	3	103	43	0	0	56	0.99
282258--282282	12	2.1	12	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
282534--282558	12	2.1	12	100	0	50	52	0	0	48	1.00
282819--282843	12	2.1	12	100	0	50	52	0	0	48	1.00
281994--283649	269	6.0	282	90	3	2423	44	3	7	44	1.50
283737--283806	37	1.9	37	83	11	92	31	4	4	60	1.36
283748--283790	16	2.6	16	89	10	61	27	2	4	65	1.25
284601--284631	3	10.3	3	100	0	62	64	0	0	35	0.94
285151--285217	21	3.1	22	83	12	79	44	0	0	55	0.99
285153--285217	19	3.1	22	86	8	84	44	0	0	55	0.99
287150--287255	53	2.0	55	83	9	139	48	0	0	50	1.07
287320--287374	21	2.5	23	82	8	71	54	0	0	45	0.99
287336--287380	23	2.0	22	83	12	56	60	0	0	40	0.97
287759--287801	22	1.9	23	85	4	61	46	0	2	51	1.13
288767--288812	22	2.1	21	88	4	65	67	0	2	30	1.03
288811--288898	22	3.8	23	76	21	78	54	0	1	44	1.07
289267--289347	16	4.9	16	77	4	81	35	1	0	62	1.03
295006--295037	2	16.0	2	93	0	55	50	3	0	46	1.17
301172--301400	116	2.0	116	97	0	431	40	3	21	34	1.72
302216--302278	15	3.9	15	78	19	56	42	0	1	55	1.09
302219--302278	8	7.2	8	78	16	52	41	0	1	56	1.09
302651--302687	6	6.2	6	90	0	56	78	0	5	16	0.93
302651--302687	12	3.1	12	96	0	65	78	0	5	16	0.93
302650--302685	18	2.0	18	94	0	63	75	0	8	16	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
303103--303140	17	2.2	18	85	4	51	57	2	0	39	1.12
303310--303364	18	3.2	18	79	7	60	54	1	0	43	1.10
303017--303471	225	2.0	225	93	0	777	49	9	5	35	1.59
303491--303531	2	20.5	2	100	0	82	48	0	0	51	1.00
304650--304712	33	1.9	32	84	9	83	58	0	3	38	1.14
305401--305436	2	18.0	2	100	0	72	50	0	0	50	1.00
305471--305499	2	14.5	2	100	0	58	51	0	0	48	1.00
305959--305987	2	14.5	2	100	0	58	48	0	0	51	1.00
306168--306200	17	1.9	17	88	11	50	33	6	0	60	1.21
306550--306582	2	16.5	2	93	0	57	48	0	0	51	1.00
306881--306930	22	2.3	22	86	6	66	48	0	0	52	1.00
308921--308964	17	2.6	16	82	7	52	47	6	0	45	1.29
310477--310527	20	2.8	18	72	16	52	43	0	0	56	0.99
310484--310532	23	2.2	21	85	7	62	38	0	0	61	0.96
310595--310669	24	3.2	23	74	7	60	48	0	9	42	1.35
310617--310674	28	2.1	28	87	9	84	51	0	10	37	1.36
312488--312571	29	3.0	29	81	11	86	46	0	0	53	1.00
312474--312554	37	2.2	36	82	8	92	43	0	0	56	0.99
312457--312558	22	4.7	22	66	28	58	45	0	0	54	0.99
313054--313079	3	8.7	3	100	0	52	0	30	0	69	0.89
313749--313859	56	2.0	57	82	5	136	23	11	25	39	1.88
314585--314616	16	2.0	16	100	0	64	18	31	12	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317567--317592	2	13.0	2	100	0	52	50	0	0	50	1.00
323193--323233	2	20.5	2	100	0	82	51	0	0	48	1.00
324613--324662	25	2.0	25	100	0	100	44	4	4	48	1.40
327780--328823	172	6.0	171	79	4	855	45	12	10	31	1.76
329310--329342	2	16.5	2	100	0	66	0	48	0	51	1.00
335336--335413	16	4.9	16	68	14	63	41	25	15	17	1.89
335336--335425	31	2.8	32	83	6	103	42	25	14	17	1.87
335337--335429	16	5.8	16	68	15	59	43	23	15	18	1.87
335840--335892	24	2.2	25	86	3	72	58	3	1	35	1.27
339038--339096	21	2.8	21	78	0	64	40	3	18	37	1.68
339062--339105	21	2.1	21	82	0	52	43	6	13	36	1.71
339483--339555	22	3.1	22	76	17	67	52	0	1	46	1.09
339672--339705	3	11.3	3	100	0	68	64	0	0	35	0.94
339825--339867	15	3.0	14	83	12	52	53	0	0	46	1.00
339825--339867	16	2.9	15	86	10	54	53	0	0	46	1.00
343881--343912	2	16.0	2	100	0	64	50	0	0	50	1.00
343977--344016	17	2.4	16	88	8	62	70	2	0	27	1.01
345231--345277	17	2.8	17	80	3	51	57	0	0	42	0.98
345441--345488	19	2.5	19	79	3	51	47	4	0	47	1.21
345634--345696	15	4.4	14	76	5	56	50	1	3	44	1.27
345658--345710	21	2.5	21	77	14	56	43	0	5	50	1.25
345715--345756	22	1.9	22	85	0	57	45	14	2	38	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345932--345979	19	2.5	19	82	0	60	45	0	0	54	0.99
346372--346428	20	2.8	20	75	14	55	59	1	1	36	1.18
348485--348516	2	16.0	2	100	0	64	50	0	0	50	1.00
348911--348946	2	18.0	2	100	0	72	50	0	50	0	1.00
350901--350947	16	2.8	17	84	12	62	31	0	4	63	1.13
355996--356041	16	2.8	17	77	9	51	34	0	0	65	0.93
357179--357218	19	2.1	19	85	4	53	57	5	0	37	1.21
361453--361502	10	5.1	10	86	13	68	68	0	0	32	0.90
363669--363710	16	2.6	16	76	0	57	47	0	0	52	1.00
363721--363781	16	3.6	16	74	17	52	52	3	0	44	1.17
364090--364129	2	20.0	2	100	0	80	50	0	0	50	1.00
366240--366291	21	2.5	21	96	0	95	21	28	0	50	1.49
373211--373392	55	3.3	54	78	6	188	34	30	15	20	1.93
377684--377718	9	3.9	9	84	0	52	71	0	0	28	0.86
379100--379191	20	4.7	20	77	9	100	40	18	6	34	1.77
379106--379191	19	4.4	19	76	4	82	40	17	5	36	1.74
379179--379219	20	2.0	20	90	0	64	53	9	4	31	1.55
382480--382719	119	2.0	119	97	0	453	36	16	20	27	1.93
383903--383950	20	2.4	20	100	0	96	45	20	0	33	1.52
383955--384000	19	2.6	18	80	10	58	45	15	6	32	1.71
384795--384922	21	6.1	20	75	17	100	31	2	11	54	1.49
384876--384914	10	3.8	10	83	6	51	33	0	15	51	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384805--384906	42	2.4	43	78	14	122	32	0	10	55	1.41
384805--384922	42	2.8	42	77	13	118	32	1	11	55	1.45
384936--385064	21	6.2	21	66	20	65	37	10	6	46	1.63
384947--385084	42	3.3	42	83	3	136	38	7	8	44	1.65
384984--385085	41	2.5	42	86	1	134	42	6	8	42	1.62
384991--385106	62	1.9	61	83	5	153	40	6	8	43	1.62
386624--386661	13	2.7	14	84	12	51	63	0	2	34	1.09
389581--389675	46	2.2	42	81	14	104	47	0	0	52	1.00
390213--390246	12	3.0	12	91	8	54	58	0	0	41	0.98
390493--390543	11	4.5	11	78	9	50	78	0	0	21	0.75

Tables:   1   2   3   4   5   6   7