genome.fa.s88.2.7.7.80.10.50.1000.3.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: Scaffold88
Parameters: 2 7 7 80 10 50 1000
Length:  1260485

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 920 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)
258502--258548	22	2.0	22	88	12	67	42	2	0	55	1.12
258524--258561	15	2.5	16	83	12	53	47	0	0	52	1.00
258528--258561	16	2.1	17	89	10	54	44	0	0	55	0.99
258609--258648	21	2.0	20	90	9	64	32	0	0	67	0.91
258738--258769	17	1.9	16	93	6	55	34	0	3	62	1.11
258804--258840	16	2.5	15	91	8	58	43	0	0	56	0.99
258778--258834	24	2.4	23	77	8	60	40	0	0	59	0.97
258906--258932	12	2.2	12	100	0	54	62	0	0	37	0.95
259163--259210	25	1.9	25	86	0	69	43	0	6	50	1.27
259575--259611	19	1.9	19	88	0	56	54	2	0	43	1.14
260821--260863	21	2.0	21	86	8	61	60	2	0	37	1.10
273415--273450	17	2.1	17	100	0	72	16	8	30	44	1.77
279097--279128	2	16.0	2	100	0	64	50	0	0	50	1.00
281326--281385	7	8.6	7	83	10	61	56	1	1	40	1.19
281326--281377	15	3.7	15	80	10	56	59	0	1	38	1.08
284281--284341	21	2.9	22	81	11	67	44	0	0	55	0.99
284450--284523	31	2.3	32	88	6	114	45	0	2	51	1.15
285043--285089	24	2.0	24	83	8	60	53	0	4	42	1.20
285104--285136	10	3.0	11	86	13	50	36	0	0	63	0.95
285421--285470	2	26.5	2	84	11	70	48	0	2	50	1.12
285423--285470	19	2.6	19	86	3	71	47	0	2	50	1.12
288334--288373	21	2.0	20	85	14	55	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
292895--292966	36	2.0	36	91	0	117	16	22	8	52	1.70
293025--293065	14	3.2	13	78	21	50	60	0	2	36	1.10
293226--293272	13	3.7	13	80	11	53	57	0	0	42	0.98
297143--297177	18	2.0	18	88	5	54	8	5	0	85	0.73
297714--297738	2	12.5	2	100	0	50	48	0	0	52	1.00
301141--301325	34	5.5	34	86	3	248	40	25	7	26	1.82
305399--305473	19	3.9	19	94	0	123	34	17	16	32	1.92
305777--305959	34	5.4	34	85	5	237	39	25	7	26	1.83
306236--306269	7	4.9	7	88	0	50	50	0	0	50	1.00
306215--306259	23	2.0	23	86	0	63	53	0	2	44	1.13
308506--308588	27	3.0	28	78	15	84	43	0	1	55	1.07
308914--308983	32	2.2	32	86	2	95	51	1	2	44	1.25
308935--308983	16	3.0	17	69	22	50	51	0	0	48	1.00
311789--311838	25	2.0	25	84	7	66	52	8	8	32	1.60
320599--320636	2	19.0	2	100	0	76	50	0	0	50	1.00
321088--321121	2	17.0	2	100	0	68	50	50	0	0	1.00
322330--322379	22	2.3	23	83	13	61	8	14	8	70	1.34
323059--323125	16	4.2	16	72	11	57	20	11	14	52	1.74
323328--323366	16	2.4	16	82	0	51	30	15	17	35	1.91
323746--323810	17	3.8	17	68	24	55	50	1	0	47	1.10
323877--323932	28	2.0	29	82	10	71	44	3	1	50	1.29
323886--323932	15	3.2	15	76	11	53	46	4	0	48	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324920--324980	18	3.6	18	72	22	60	39	1	3	55	1.26
324911--324977	31	2.2	31	94	0	116	37	1	2	58	1.23
324913--324985	31	2.5	28	79	12	92	38	1	2	57	1.22
328767--328885	60	2.0	60	94	0	211	27	10	14	47	1.77
331579--331614	2	18.0	2	100	0	72	50	0	0	50	1.00
331831--331894	26	2.7	23	84	15	71	53	0	1	45	1.10
333205--333339	19	6.8	20	69	25	85	54	0	0	45	1.00
333205--333340	17	6.9	19	72	23	97	53	0	0	46	1.00
333844--333874	15	2.1	15	93	0	53	58	0	0	41	0.98
333967--334010	19	2.3	19	84	11	54	50	0	2	47	1.13
334030--334059	15	1.9	16	93	6	53	70	0	6	23	1.11
334639--334690	26	2.0	25	82	14	61	53	0	1	44	1.11
335304--335342	11	3.5	11	93	6	62	48	0	0	51	1.00
340215--340926	356	2.0	357	99	0	1408	30	12	18	39	1.87
344083--344113	2	15.5	2	93	0	53	48	0	3	48	1.17
346183--346215	14	2.4	14	94	0	57	63	0	0	36	0.95
347175--347208	2	17.0	2	100	0	68	0	50	0	50	1.00
348970--349011	21	1.9	23	90	9	70	35	4	0	59	1.19
349516--349549	2	17.0	2	87	0	50	50	5	0	44	1.26
349507--349547	14	3.0	14	92	3	66	48	7	0	43	1.30
350976--351012	18	2.1	18	89	0	56	35	8	10	45	1.69
353712--353741	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355067--355099	2	16.5	2	93	0	57	48	0	3	48	1.17
355246--355284	20	2.0	20	89	0	60	12	46	5	35	1.65
359663--359733	27	2.6	27	84	6	90	23	7	22	46	1.76
361679--361724	5	9.2	5	84	13	51	52	0	2	45	1.13
365255--365280	2	13.0	2	100	0	52	50	0	0	50	1.00
375440--375485	19	2.4	19	92	0	74	60	23	6	8	1.49
377289--377353	2	32.5	2	100	0	130	0	49	0	50	1.00
380004--380043	20	2.0	20	100	0	80	25	25	15	35	1.94
383695--383736	20	2.1	20	100	0	84	45	14	23	16	1.84
387330--387377	20	2.4	20	80	16	55	29	0	2	68	1.01
387467--387550	43	2.0	41	81	6	98	51	3	0	45	1.18
391983--392022	20	2.0	21	95	5	73	65	5	0	30	1.14
391979--392025	20	2.4	20	83	16	71	65	4	0	29	1.11
392127--392249	8	15.1	8	66	26	55	60	1	0	36	1.12
392162--392267	33	3.0	33	78	17	115	63	0	0	35	1.01
392109--392267	19	8.4	18	70	16	101	61	1	0	35	1.11
392196--392261	15	4.4	15	68	25	50	65	0	0	34	0.93
399957--399987	1	31.0	1	93	0	53	0	0	96	3	0.21
400717--400768	27	2.0	28	85	11	74	55	0	1	42	1.10
402684--402734	22	2.4	22	80	9	61	47	0	0	52	1.00
404059--404178	59	2.0	59	100	0	240	33	21	13	31	1.92
404503--404616	55	2.0	56	88	3	167	39	11	13	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409816--409840	13	1.9	13	100	0	50	32	0	12	56	1.36
409934--409976	22	2.0	22	90	4	70	44	4	4	46	1.45
411402--411511	20	5.6	20	67	22	54	36	2	0	60	1.11
411398--411496	17	5.9	17	72	24	59	37	3	0	59	1.13
411384--411535	80	1.9	80	83	10	179	38	3	0	58	1.14
411439--411512	29	2.6	29	81	14	91	31	5	0	63	1.17
411396--411536	18	7.3	19	69	15	85	36	2	0	60	1.12
411474--411518	20	2.2	20	88	0	63	28	2	0	68	1.01
411421--411538	11	10.2	12	71	22	67	36	3	0	60	1.14
411669--411693	2	12.5	2	100	0	50	48	0	0	52	1.00
411691--411727	4	9.2	4	100	0	74	24	0	24	51	1.49
412278--412315	3	13.0	3	94	5	69	31	0	0	68	0.90
412555--412585	15	2.1	15	94	5	55	45	0	0	54	0.99
413205--413233	2	14.5	2	100	0	58	51	0	0	48	1.00
420954--421019	20	3.7	20	66	29	58	45	0	1	53	1.09
420956--421032	32	2.3	34	86	6	104	40	0	2	57	1.13
420947--421032	32	2.7	32	83	5	102	41	0	2	55	1.12
421765--421814	14	2.9	19	66	27	56	34	0	10	56	1.33
421834--421869	2	18.0	2	88	0	54	47	2	2	47	1.31
423930--423985	5	11.4	5	78	17	64	37	0	0	62	0.95
423938--423995	25	2.2	27	87	9	84	39	0	0	60	0.97
423929--424008	31	2.6	30	81	15	83	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424948--424980	15	2.2	15	94	0	57	51	0	0	48	1.00
425187--425243	7	8.7	7	72	14	50	70	3	1	24	1.13
425188--425250	19	3.5	17	73	14	63	69	3	1	25	1.12
425275--425308	18	1.9	17	88	5	50	50	0	0	50	1.00
425252--425325	34	2.2	36	85	11	111	54	0	0	45	1.00
425234--425325	33	2.7	34	81	9	109	56	0	0	43	0.99
425857--425903	17	2.8	16	78	15	51	57	2	0	40	1.11
425972--426018	21	2.2	21	88	7	69	72	0	0	27	0.85
425968--426016	16	3.0	16	79	11	55	73	0	0	26	0.83
425952--426027	26	2.8	28	74	13	77	64	0	1	34	1.02

Tables:   1   2   3   4   5   6   7   8