genome.fa.s41.2.7.7.80.10.50.1000.5.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: Scaffold41
Parameters: 2 7 7 80 10 50 1000
Length:  2798036

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  5  of  21  ( 2447 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)
428260--428315	18	3.0	19	82	7	62	48	1	0	50	1.11
428381--428419	20	1.9	21	84	5	53	46	0	2	51	1.14
429528--429554	3	9.0	3	100	0	54	0	33	0	66	0.92
430260--430300	22	1.9	21	85	5	55	48	2	0	48	1.14
430504--430541	14	2.6	15	83	8	51	47	0	0	52	1.00
430541--430592	16	3.2	17	76	15	56	61	0	0	38	0.96
432009--432055	18	2.6	17	81	15	51	40	2	2	55	1.24
432542--432587	25	1.9	24	82	8	58	43	0	2	54	1.12
435005--435058	14	3.7	16	76	16	55	46	0	0	53	1.00
436420--436464	19	2.3	21	88	11	69	37	0	0	62	0.96
437604--437640	16	2.3	16	90	0	56	45	0	0	54	1.00
437631--437732	14	7.6	14	70	27	78	49	0	0	50	1.07
437592--437682	21	4.1	23	73	17	77	41	0	0	58	0.98
437632--437723	15	6.1	16	74	15	65	46	1	0	52	1.07
437656--437730	31	2.4	33	77	18	81	49	1	0	49	1.09
437835--437876	16	2.4	16	88	11	57	80	0	0	19	0.70
437835--437876	18	2.2	18	91	8	66	80	0	0	19	0.70
438021--438064	14	3.1	15	80	9	56	47	0	0	52	1.00
438498--438538	22	1.9	22	95	5	75	43	0	0	56	0.99
440258--440289	2	16.0	2	100	0	64	50	0	0	50	1.00
440506--440542	19	1.9	19	89	10	58	64	0	0	35	0.94
440506--440552	18	2.5	20	80	10	55	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441230--441277	19	2.6	18	83	6	69	31	14	16	37	1.89
441444--441470	2	13.5	2	100	0	54	48	0	0	51	1.00
441514--441591	29	2.7	30	77	16	85	56	0	0	43	0.99
442875--442921	20	2.4	19	82	7	58	55	0	2	42	1.12
445005--445108	34	3.2	33	76	7	90	45	5	2	46	1.42
445754--445828	33	2.3	33	83	0	96	45	2	2	49	1.30
445887--445936	22	2.2	22	85	7	64	34	8	24	34	1.84
446688--446741	27	2.0	27	82	7	65	55	0	0	44	0.99
449096--449135	21	2.0	21	85	5	55	57	5	0	37	1.21
449425--449457	11	3.0	11	87	12	50	69	0	0	30	0.88
449425--449468	22	2.0	22	82	8	54	65	2	2	29	1.16
449541--449576	12	3.1	12	84	8	56	66	0	0	33	0.92
450035--450068	18	2.0	18	88	11	54	61	0	0	38	0.96
450917--450978	21	3.1	20	72	19	58	48	0	0	51	1.00
450922--450992	32	2.2	32	85	7	99	43	0	0	56	0.99
450918--450985	19	3.5	20	78	20	72	47	0	0	52	1.00
450924--450996	10	7.1	11	70	23	52	43	0	0	56	0.99
451121--451184	26	2.5	26	82	5	67	59	0	0	40	0.97
451248--451279	16	2.0	16	100	0	64	50	0	0	50	1.00
451241--451283	23	1.9	22	85	4	59	55	0	0	44	0.99
451361--451418	22	2.7	21	72	27	59	37	0	1	60	1.07
451406--451483	40	2.0	40	85	7	106	53	6	1	38	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452113--452182	29	2.6	26	78	17	81	37	0	1	61	1.05
453682--453923	50	4.8	50	89	2	369	34	19	18	28	1.95
459572--459874	50	6.2	50	90	2	456	30	19	21	28	1.97
461608--461638	2	15.5	2	93	0	53	48	3	0	48	1.17
461913--461962	23	2.3	21	78	15	57	42	2	2	54	1.23
464148--464190	22	2.0	21	86	13	61	41	11	2	44	1.53
464926--464976	26	2.0	26	84	7	68	58	0	41	0	0.98
466618--466646	2	14.5	2	100	0	58	48	0	0	51	1.00
468225--468284	24	2.7	23	82	12	63	50	0	0	50	1.00
468555--468629	34	2.1	35	82	12	89	54	0	0	45	0.99
473184--473236	21	2.5	22	82	14	67	45	9	1	43	1.47
473529--473562	16	2.1	17	89	10	54	23	0	0	76	0.79
473529--473566	5	7.4	5	83	16	51	23	0	0	76	0.79
473626--473672	24	2.0	23	87	4	67	25	4	4	65	1.29
473670--473731	24	2.7	23	77	7	63	45	8	1	45	1.42
474100--474162	30	2.1	31	88	8	94	57	1	0	41	1.08
474148--474198	23	2.2	23	77	19	52	54	0	0	45	0.99
474125--474198	24	3.1	22	75	21	78	55	0	0	44	0.99
475526--475597	24	2.8	26	70	17	62	62	4	1	31	1.23
475668--475741	17	4.3	18	70	11	57	60	2	0	36	1.11
477138--477210	15	5.3	15	72	23	54	58	2	0	38	1.12
477238--477310	8	8.9	8	73	18	53	56	0	1	42	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477238--477288	25	2.1	23	89	7	75	54	0	0	45	0.99
477203--477305	51	1.9	56	83	13	137	53	0	0	45	1.06
477205--477288	40	2.1	39	82	8	98	52	0	0	47	1.00
484530--484562	15	2.2	15	100	0	66	60	0	0	39	0.97
484816--484857	22	1.9	22	90	9	68	38	0	0	61	0.96
484855--484895	20	2.0	21	85	4	57	53	0	0	46	1.00
485461--485528	16	4.1	16	80	16	68	44	0	0	55	0.99
486045--486120	34	2.4	30	80	12	89	55	0	1	43	1.08
486029--486120	32	2.9	34	79	10	97	55	0	1	43	1.07
486849--486887	15	2.5	15	83	4	51	28	0	2	69	1.02
486834--486871	20	1.9	19	89	5	58	36	0	0	63	0.95
488655--488714	21	2.6	22	82	15	68	38	1	0	60	1.07
493284--493318	2	17.5	2	87	0	52	48	5	0	45	1.26
497916--498024	17	6.6	16	68	21	57	54	0	0	44	1.06
497912--498066	28	5.1	32	70	25	99	56	0	0	42	1.04
497947--498006	18	3.6	18	72	25	67	53	0	0	46	1.00
497947--498002	16	3.4	17	72	20	55	53	0	0	46	1.00
497912--498019	32	3.5	30	80	15	107	54	0	0	44	1.06
497912--498073	32	5.6	29	73	19	101	56	0	0	42	1.03
498193--498274	28	2.8	29	78	12	96	40	1	2	56	1.20
498189--498280	15	6.1	15	66	9	53	39	1	3	56	1.23
498318--498348	16	1.9	16	93	0	53	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510201--510290	18	4.8	18	70	12	65	31	3	3	62	1.28
510258--510297	16	2.4	16	91	4	62	32	0	0	67	0.91
510239--510297	17	3.4	17	83	6	66	33	3	1	61	1.23
511288--511333	23	2.1	21	84	8	56	32	0	0	67	0.91
511936--512019	44	1.9	44	92	0	141	27	15	10	46	1.79
513801--513855	22	2.4	23	78	9	58	56	3	0	40	1.17
514980--515006	2	13.5	2	100	0	54	51	0	0	48	1.00
517775--517939	32	5.4	31	68	12	99	61	0	1	37	1.04
517794--517890	16	6.4	16	67	24	52	58	0	0	41	0.98
517845--517933	31	3.1	27	81	13	83	61	0	2	35	1.08
517841--517926	39	2.3	36	77	15	86	60	0	2	37	1.10
524569--524597	2	14.5	2	100	0	58	48	0	0	51	1.00
525658--525716	22	2.8	21	80	14	68	61	0	0	38	0.96
525662--525726	19	3.3	19	81	14	62	58	0	0	41	0.98
527124--527178	24	2.3	24	78	3	58	50	0	0	49	1.00
529788--529847	16	3.6	16	80	10	59	33	0	0	66	0.92
529833--529894	32	1.9	33	86	3	90	45	3	1	50	1.27
531403--531495	33	2.8	33	75	16	95	41	2	2	53	1.25
531408--531470	32	1.9	33	84	9	85	42	3	3	50	1.34
531725--531776	15	3.4	15	76	12	52	53	0	0	46	1.00
531828--531862	16	2.2	16	89	0	52	45	11	14	28	1.79
531869--531910	16	2.7	16	81	3	50	64	7	0	28	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533158--533194	16	2.3	16	95	0	65	62	5	0	32	1.18
535106--535155	14	3.6	14	78	5	57	40	0	2	58	1.10
536816--536852	17	2.2	17	90	0	56	40	0	10	48	1.38
537552--537629	38	2.1	38	100	0	156	28	12	33	25	1.93
538857--538892	16	2.3	16	90	4	56	33	0	0	66	0.92
538900--538930	16	1.9	16	93	0	53	38	6	6	48	1.55
539439--539498	8	7.8	8	76	12	54	40	1	0	58	1.08
539444--539508	22	3.1	21	80	6	62	41	1	0	56	1.08
539649--539687	13	3.1	13	85	7	53	53	0	0	46	1.00
539654--539687	12	2.8	12	90	4	50	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21