genome.fa.s2400.2.7.7.80.10.50.1000.2.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: scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  1016241

Tables:   1   2   3   4   

This is table  2  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)
256700--256763	14	4.6	14	75	11	51	0	31	0	68	0.90
256867--256936	27	2.6	27	88	0	113	20	32	20	27	1.97
262417--262543	43	3.0	42	76	14	134	22	18	29	29	1.98
267682--268905	612	2.0	612	99	0	2432	30	15	21	32	1.94
270977--271098	43	2.8	43	77	16	128	22	18	29	28	1.98
274207--274258	16	3.2	16	88	0	77	26	30	5	36	1.80
276470--277887	557	2.5	563	81	6	1588	33	19	11	35	1.88
278758--278815	26	2.2	27	78	6	64	31	18	15	34	1.93
290407--290478	35	2.1	35	100	0	144	40	16	16	26	1.90
296569--297012	167	2.7	167	93	0	746	35	18	13	32	1.90
297409--297445	18	2.1	18	94	0	65	27	24	27	21	1.99
305383--305456	29	2.6	29	89	4	107	22	14	18	43	1.87
311856--311909	24	2.2	24	93	0	90	37	12	20	29	1.90
312196--312642	44	10.1	44	78	6	391	30	19	23	26	1.98
312191--312643	178	2.6	178	88	1	676	30	19	22	26	1.98
312653--313098	225	2.0	223	85	1	597	30	19	21	28	1.97
313021--313172	44	3.5	43	81	8	157	27	19	23	30	1.98
313205--313396	88	2.2	89	83	2	235	29	26	21	23	1.99
313396--313714	44	7.3	44	65	11	134	28	18	26	26	1.98
313394--313771	131	2.9	132	90	1	589	28	18	26	25	1.98
315335--315573	48	5.0	48	90	1	309	28	19	26	25	1.99
319345--319378	17	2.1	17	94	5	61	17	2	17	61	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
322891--322956	33	2.0	33	93	0	114	30	10	22	36	1.88
323771--323917	77	1.9	78	95	1	269	25	12	16	46	1.81
325188--325252	25	2.6	25	90	0	103	27	18	20	33	1.96
325355--325384	14	2.1	14	100	0	60	30	30	13	26	1.94
331257--331291	13	2.7	13	86	0	52	42	5	0	51	1.25
339114--339159	24	1.9	24	82	8	58	30	6	13	50	1.66
346262--346415	77	2.0	77	98	0	299	48	12	16	22	1.80
347822--347879	21	2.7	21	84	7	64	34	18	18	27	1.95
362551--362595	23	2.0	24	86	8	67	37	0	4	57	1.19
363972--364014	19	2.3	19	88	8	61	58	9	9	23	1.58
365841--365901	26	2.4	25	83	8	77	44	14	8	32	1.75
372437--372721	35	8.1	35	69	9	166	32	19	22	24	1.97
372436--372728	71	4.1	71	82	3	367	33	19	22	24	1.97
372472--372725	36	7.1	36	68	6	131	33	19	22	24	1.97
372388--372728	142	2.4	142	83	4	427	34	19	21	24	1.96
373352--373385	15	2.3	15	90	10	52	23	2	0	73	0.97
382166--382196	16	1.9	16	93	0	53	35	12	9	41	1.76
383155--383203	18	2.8	17	78	9	53	40	14	0	44	1.45
391115--391189	21	3.6	21	83	7	89	48	20	17	14	1.82
393306--393364	17	3.6	17	76	17	70	57	6	0	35	1.25
393297--393367	32	2.2	32	97	2	135	56	5	0	38	1.23
394012--394264	136	1.9	136	82	3	321	30	18	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404234--404675	126	3.5	124	88	2	602	30	17	22	29	1.97
404828--405016	94	2.0	94	95	0	342	31	14	22	31	1.94
405782--405819	19	2.0	19	94	0	67	28	5	28	36	1.79
408113--408363	22	11.4	22	78	9	271	23	0	31	44	1.59
408113--408363	43	5.7	43	80	6	265	23	0	31	44	1.59
408904--408946	18	2.4	18	84	0	59	46	9	27	16	1.77
409780--409817	20	1.9	20	84	10	51	55	7	2	34	1.43
410755--410854	51	2.0	50	82	7	121	46	2	24	28	1.64
410822--410867	11	4.0	12	78	16	53	41	2	32	23	1.67
411861--411936	31	2.5	31	91	0	125	25	15	14	44	1.84
412106--412145	21	1.9	21	90	10	64	57	0	5	37	1.21
413139--413218	31	2.6	31	82	3	92	42	16	17	23	1.88
413577--413653	31	2.5	31	81	10	88	45	15	10	28	1.79
418483--418527	22	2.0	22	91	0	72	24	46	11	17	1.81
418638--418684	22	2.1	22	92	0	76	17	51	17	14	1.77
418404--418705	148	2.1	145	85	4	401	16	47	8	27	1.76
418638--418698	22	2.8	22	85	5	61	18	52	14	14	1.75
419546--419577	15	2.1	15	94	0	55	28	15	21	34	1.94
421999--422396	194	2.0	195	96	1	728	25	13	15	46	1.81
429739--429772	12	2.9	11	87	12	50	85	0	14	0	0.60
432923--432992	21	3.3	21	66	7	61	18	15	41	24	1.89
432906--433035	42	3.1	42	90	0	188	21	16	37	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432978--433039	21	3.0	21	66	17	56	17	17	37	27	1.93
438220--438351	39	3.4	38	92	3	201	32	8	9	50	1.64
445462--445516	29	2.0	27	82	13	67	60	10	14	14	1.60
453757--453980	41	5.5	41	78	0	205	21	26	15	35	1.94
453763--453980	82	2.7	82	80	0	238	21	27	15	35	1.94
459389--459418	14	2.1	14	93	0	51	40	0	43	16	1.48
464798--464985	51	3.7	51	83	2	227	26	15	27	30	1.96
472654--472680	5	5.4	5	100	0	54	81	0	0	18	0.69
486592--486911	157	2.0	157	95	0	568	29	24	13	32	1.93
504193--504244	20	2.6	20	77	17	54	23	21	13	42	1.88
504473--504703	115	2.0	116	99	0	455	31	13	23	31	1.93
506785--506846	17	3.4	18	82	6	81	70	3	17	8	1.25
515701--515730	12	2.5	12	88	0	51	30	40	23	6	1.80
526998--527179	45	4.1	45	85	5	219	33	27	15	23	1.95
533163--533218	21	2.7	21	74	0	58	23	32	21	23	1.98
543300--543374	35	2.1	35	81	13	84	22	4	6	66	1.32
544980--545027	6	8.8	5	84	13	51	14	0	6	79	0.92
544985--545027	6	7.5	6	86	2	54	16	0	4	79	0.90
544985--545027	18	2.5	17	88	7	61	16	0	4	79	0.90
552667--552701	16	2.2	16	90	5	54	31	11	8	48	1.69
553319--553417	41	2.4	41	82	11	123	37	4	6	52	1.45
554306--554364	20	2.9	21	78	16	61	55	1	5	37	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554311--554393	30	2.7	30	78	10	80	53	1	7	38	1.37
554390--554438	11	4.4	11	87	10	64	75	0	8	16	1.03
558810--558956	73	2.0	73	95	0	267	47	13	16	22	1.81
560349--561119	44	17.8	44	71	15	321	28	24	19	28	1.98
560358--561075	217	3.3	217	93	1	1208	28	24	18	28	1.98
561142--561262	44	2.7	45	85	8	167	24	25	21	28	1.99
566236--566309	37	2.0	37	100	0	148	32	24	10	32	1.90
575702--575750	20	2.5	20	89	0	71	30	6	8	55	1.54
578262--579609	674	2.0	674	99	0	2680	34	10	20	35	1.86
586667--586787	23	5.3	23	80	13	142	22	19	26	31	1.98
586666--586787	46	2.7	46	91	5	194	22	19	26	31	1.98
586991--587038	23	2.0	25	84	8	64	39	0	22	37	1.55
588627--588669	17	2.4	17	80	7	50	11	20	44	23	1.84
588949--589063	27	4.3	27	89	4	155	35	20	20	24	1.96
589135--589255	24	5.0	24	89	0	170	25	5	23	45	1.75
589135--589292	24	6.6	24	85	0	127	27	6	21	44	1.76
589135--589273	72	1.9	71	81	5	163	25	6	22	45	1.76
589355--589419	27	2.4	27	80	14	73	21	23	21	33	1.97
589449--589656	32	6.5	32	80	5	233	19	21	22	36	1.95
589435--589656	64	3.5	64	94	0	381	19	21	22	36	1.95
589911--589998	28	3.0	29	86	5	108	22	22	25	29	1.99
589911--589984	28	2.6	28	93	0	121	21	22	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591420--591457	5	7.4	5	85	14	51	81	0	18	0	0.69
591420--591457	15	2.4	16	95	4	69	81	0	18	0	0.69
591420--591458	20	1.9	21	94	5	71	79	0	20	0	0.73
591420--591487	20	3.3	20	81	2	64	69	0	29	1	0.98
591429--591488	20	3.0	20	80	0	66	65	0	31	3	1.09
602215--602249	7	5.1	7	93	6	63	71	0	0	28	0.86
602683--602823	60	2.4	59	80	2	149	23	17	12	47	1.80
607194--607340	28	5.2	28	79	4	154	31	23	18	26	1.97
607170--607340	56	3.1	56	83	1	193	30	23	18	26	1.98
608186--608254	31	2.2	31	82	10	79	43	11	17	27	1.83

Tables:   1   2   3   4