genome.fa.s648.2.7.7.80.10.50.1000.3.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: Scaffold648
Parameters: 2 7 7 80 10 50 1000
Length:  536246

Tables:   1   2   3   4   

This is table  3  of  4  ( 400 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)
308774--309027	30	8.4	32	80	7	132	29	29	18	22	1.97
311965--312006	19	2.3	18	80	11	50	45	11	4	38	1.62
313036--313082	14	3.4	13	83	16	51	80	0	17	2	0.80
313049--313079	16	1.9	16	93	0	53	80	0	19	0	0.71
320874--320924	21	2.4	21	83	0	66	35	13	5	45	1.68
321245--321335	45	2.0	44	91	2	146	35	14	10	39	1.81
334111--334156	19	2.4	19	82	13	58	30	8	8	52	1.62
334168--334227	22	2.6	23	79	10	61	31	3	0	65	1.09
342582--342607	13	2.0	13	100	0	52	30	38	7	23	1.83
346020--346059	19	2.1	19	95	0	71	25	20	37	17	1.94
346243--346272	16	1.9	15	93	6	51	26	0	0	73	0.84
346529--346562	17	2.0	17	88	0	50	38	2	11	47	1.55
347579--347698	47	2.6	47	97	0	222	41	3	15	39	1.64
347669--347728	30	2.0	30	100	0	120	43	3	6	46	1.46
347622--347800	77	2.4	75	92	3	290	44	3	12	40	1.59
347749--347787	9	4.4	9	83	6	53	51	5	0	43	1.24
348606--348851	130	1.9	128	87	1	357	40	4	10	44	1.58
349462--349519	26	2.3	26	85	14	77	55	0	0	44	0.99
350103--350153	22	2.3	22	82	0	57	39	1	1	56	1.22
350236--350274	19	2.0	20	90	9	64	53	5	5	35	1.45
350282--350415	59	2.3	59	92	0	223	38	3	17	41	1.67
352477--352520	16	2.8	16	82	6	54	40	2	6	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352491--352534	16	2.8	16	82	6	54	45	0	2	52	1.13
352781--352854	20	3.8	19	77	16	64	45	0	6	47	1.29
352730--352931	77	2.6	79	77	10	184	45	2	5	46	1.41
364173--364214	3	15.0	3	80	14	54	30	0	2	66	1.04
364173--364205	17	1.9	17	93	0	57	33	0	0	66	0.92
364173--364214	14	3.0	14	89	6	59	30	0	2	66	1.04
364590--364616	2	13.5	2	100	0	54	48	0	0	51	1.00
365047--365086	18	2.2	18	86	0	53	47	0	5	47	1.24
365217--365257	2	20.5	2	89	0	64	46	0	53	0	1.00
366105--366164	30	2.1	29	84	6	77	48	1	1	48	1.21
367176--367215	21	1.9	21	85	10	55	37	0	0	62	0.95
367774--367822	26	1.9	26	88	12	75	51	12	2	34	1.51
370437--370465	2	14.5	2	100	0	58	51	0	0	48	1.00
371302--371344	15	2.8	15	82	3	50	44	0	0	55	0.99
371360--371402	16	2.7	16	81	0	59	30	6	11	51	1.65
372254--372301	16	2.9	16	81	3	60	25	8	18	47	1.76
372440--372532	30	3.1	30	84	0	114	53	11	5	29	1.59
381160--381227	31	2.2	31	83	0	91	29	17	1	51	1.54
383094--383127	13	2.6	13	90	0	50	35	14	14	35	1.87
388657--388695	20	1.9	21	89	5	62	30	10	10	48	1.70
389983--390024	14	2.9	14	89	3	66	57	7	0	35	1.26
390085--390142	17	3.3	17	77	17	73	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390067--390161	36	2.7	36	76	11	106	64	1	2	32	1.12
390085--390145	21	3.2	21	73	26	80	68	0	0	31	0.89
392237--392261	13	1.9	13	100	0	50	68	0	0	32	0.90
394950--394975	6	4.3	6	100	0	52	50	15	34	0	1.45
396165--396196	2	16.0	2	100	0	64	50	0	0	50	1.00
397684--397725	20	2.0	21	86	13	61	54	2	0	42	1.13
398117--398172	25	2.3	24	84	9	69	41	12	1	44	1.53
398170--398213	3	15.0	3	81	13	56	65	0	2	31	1.05
400619--400977	179	2.0	180	97	1	686	41	11	17	29	1.84
404783--404866	43	2.0	43	87	0	123	41	17	13	27	1.87
404910--404957	20	2.3	21	89	3	71	33	16	10	39	1.83
414442--414467	2	13.0	2	100	0	52	0	0	50	50	1.00
415062--415111	26	1.9	26	83	0	64	56	0	0	44	0.99
415102--415159	24	2.5	22	79	17	64	74	0	3	22	0.97
415740--415776	13	3.1	13	81	18	53	45	0	0	54	1.00
425799--425870	31	2.3	30	88	9	101	41	2	1	54	1.23
425980--426031	22	2.4	22	80	6	61	36	5	1	55	1.35
426597--426632	18	2.1	18	94	5	65	55	0	0	44	0.99
427090--427130	20	2.0	22	90	9	68	70	14	4	9	1.30
431706--431746	17	2.4	18	80	15	52	46	0	2	51	1.14
431911--431937	7	3.9	7	100	0	54	14	0	0	85	0.61
431848--431948	31	3.4	28	77	12	80	36	0	0	61	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431864--432015	30	5.1	28	72	10	108	35	4	0	59	1.23
431997--432032	17	2.1	17	89	0	54	41	0	0	58	0.98
432612--432663	23	2.2	23	83	10	61	34	0	0	65	0.93
432610--432670	31	1.9	32	90	3	97	32	0	1	65	1.02
432612--432663	8	6.6	8	78	12	63	34	0	0	65	0.93
432678--432723	16	2.9	16	78	15	60	52	0	0	47	1.00
432753--432817	28	2.3	29	83	5	87	26	3	1	69	1.12
432766--432824	28	2.1	29	87	9	86	28	1	0	69	0.98
432921--432960	17	2.4	18	80	16	50	35	0	0	65	0.93
434475--434559	16	5.2	17	69	17	63	56	0	0	43	0.99
434486--434591	26	4.5	22	65	24	56	58	0	0	40	1.04
436863--436942	42	1.9	42	94	0	142	51	3	8	36	1.51
436863--436927	18	3.0	24	65	25	70	52	4	7	35	1.51
439414--439448	2	17.5	2	100	0	70	51	0	0	48	1.00
441054--441106	20	2.6	21	87	3	72	33	15	18	32	1.92
441054--441194	41	3.3	41	66	13	113	34	14	16	34	1.89
441051--441311	87	2.9	89	82	5	323	32	14	14	37	1.88
441229--441307	20	3.9	20	81	8	97	32	18	10	37	1.85
443710--444104	79	5.0	78	74	14	238	29	24	10	35	1.89
443815--444158	159	2.2	158	83	4	433	29	23	10	36	1.88
443813--444186	79	4.7	78	74	9	292	29	23	10	36	1.88
444488--444536	23	2.2	23	85	3	64	16	4	16	63	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446341--446401	23	2.5	24	81	10	70	34	24	1	39	1.65
449108--449570	117	3.9	117	83	1	548	31	14	15	37	1.89
450434--450526	24	3.9	24	76	0	96	33	21	22	22	1.97
452683--452708	2	13.0	2	100	0	52	50	0	0	50	1.00
452794--452835	3	14.0	3	94	0	75	33	2	0	64	1.07
453118--453169	21	2.6	19	79	17	52	42	1	0	55	1.10
453346--453375	5	5.8	5	92	7	51	20	0	0	80	0.72
453346--453382	11	3.4	11	92	7	58	21	0	0	78	0.75
454020--454049	11	2.6	11	94	5	51	20	0	0	80	0.72
454013--454054	20	2.1	20	86	8	59	21	0	0	78	0.75
454100--454126	3	9.0	3	100	0	54	33	0	0	66	0.92
454271--454409	14	10.0	14	69	6	86	30	19	21	28	1.98
459250--459283	7	4.7	7	89	7	50	79	0	0	20	0.73
459888--459949	30	2.0	32	90	6	101	38	12	14	33	1.84
462993--463037	16	2.8	17	83	6	58	48	0	0	51	1.00
462985--463038	16	3.4	16	77	7	56	44	0	0	55	0.99
462986--463077	37	2.7	33	78	15	107	42	1	0	56	1.06
463103--463146	17	2.5	18	81	3	54	56	0	0	43	0.99
463693--463753	8	7.6	8	74	18	56	59	0	0	40	0.98
463681--463753	16	4.4	17	75	13	71	58	0	1	39	1.06
464629--464686	20	2.8	20	74	23	57	41	0	0	58	0.98
464647--464701	16	3.5	15	77	20	51	38	0	1	60	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464694--464728	11	3.2	11	87	0	52	22	0	5	71	1.07
467420--467458	20	2.0	20	90	10	62	38	0	0	61	0.96
468504--468555	21	2.7	20	82	8	63	38	0	0	61	0.96
468520--468553	17	1.9	18	94	5	61	38	0	0	61	0.96
468544--468595	15	3.4	15	74	10	52	48	0	0	51	1.00
468741--468813	37	2.0	37	86	0	101	26	32	8	32	1.86
476814--476883	34	2.1	33	92	5	115	1	28	4	65	1.20
478387--478412	13	2.0	13	100	0	52	30	15	15	38	1.88
478367--478430	33	2.0	32	87	3	92	26	12	20	40	1.88
478472--478524	20	2.6	21	76	8	56	30	15	15	39	1.87

Tables:   1   2   3   4