genome.fa.s55.2.7.7.80.10.50.1000.3.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: Scaffold55
Parameters: 2 7 7 80 10 50 1000
Length:  4293517

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  3  of  21  ( 2443 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)
331224--331261	13	2.9	13	96	0	67	34	18	15	31	1.92
331373--331418	21	2.2	20	81	11	58	32	19	4	43	1.71
333787--333851	21	3.6	19	73	26	70	44	15	12	27	1.82
333805--333830	13	2.0	13	100	0	52	38	15	15	30	1.88
333787--333851	34	2.0	33	93	6	114	44	15	12	27	1.82
342834--343008	88	2.0	88	94	2	307	52	6	6	34	1.54
343452--344008	61	9.5	61	86	7	721	24	30	21	23	1.99
343452--344008	176	3.2	177	86	8	741	24	30	21	23	1.99
344776--344830	20	2.8	20	82	0	74	23	14	16	45	1.84
347125--347518	52	7.6	51	72	11	192	30	25	11	32	1.91
347245--347315	27	2.7	25	87	12	90	23	32	21	22	1.98
347300--347519	52	4.3	50	79	10	219	30	25	11	33	1.91
347502--347578	28	2.7	30	81	15	92	24	31	19	24	1.98
347453--347652	107	1.9	108	82	5	253	27	26	16	31	1.96
350119--350218	50	2.0	50	94	0	173	37	13	14	36	1.84
352231--352266	17	2.2	16	90	5	54	47	19	11	22	1.80
356433--356501	22	3.4	19	75	23	61	76	5	10	7	1.14
356433--356497	21	3.2	20	82	6	78	78	6	9	6	1.09
356739--356763	13	1.9	13	100	0	50	84	16	0	0	0.63
360997--361048	20	2.5	20	81	3	59	40	13	17	28	1.87
361081--361148	33	2.1	32	86	2	91	36	14	11	36	1.83
367176--367273	47	2.0	50	84	9	132	35	17	17	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367261--367298	13	2.9	13	92	0	58	28	18	18	34	1.95
367431--367471	22	2.0	20	86	13	57	31	21	4	41	1.74
369160--369204	22	2.0	22	87	8	65	35	2	28	33	1.70
369234--369339	52	2.0	52	98	0	203	32	14	20	33	1.92
372992--373066	20	3.8	20	77	8	82	42	13	12	32	1.80
373622--373692	33	2.1	34	84	2	90	36	16	21	25	1.94
373659--375094	28	50.1	28	84	8	1569	21	19	32	27	1.97
376329--376389	1	61.0	1	75	0	50	0	3	9	86	0.67
376313--376387	19	4.1	18	74	17	66	2	5	9	82	0.91
378623--378652	15	1.9	16	93	6	53	26	33	30	10	1.89
390209--390234	13	2.0	13	100	0	52	30	15	15	38	1.88
390273--390349	21	3.8	20	78	3	91	28	15	11	44	1.82
390294--390366	20	3.6	20	81	3	101	31	17	13	36	1.89
390273--390366	41	2.3	41	96	0	170	29	17	12	40	1.86
390921--391016	48	2.0	48	100	0	192	25	29	8	37	1.85
392856--392893	13	2.9	13	96	0	67	31	15	18	34	1.92
394973--395003	15	2.1	15	93	0	53	12	22	16	48	1.80
399065--399090	13	2.0	13	100	0	52	30	15	15	38	1.88
399129--399205	21	3.8	20	78	3	91	28	15	11	44	1.82
399150--399222	20	3.6	20	81	3	101	31	17	13	36	1.89
399129--399222	41	2.3	41	96	0	170	29	17	12	40	1.86
400402--400476	20	3.7	21	73	8	68	44	13	12	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405209--405835	27	22.7	27	81	4	520	25	32	15	27	1.96
405208--406058	28	30.8	28	81	5	505	26	31	16	25	1.96
405209--405835	55	11.4	54	80	5	522	25	32	15	27	1.96
405208--405892	82	8.3	82	79	7	562	25	32	15	26	1.96
405339--405541	57	3.6	57	77	0	199	28	31	15	24	1.96
405314--405529	85	2.5	85	81	3	238	29	30	14	25	1.95
405209--405892	109	6.2	108	76	6	455	25	32	15	26	1.96
405815--406211	28	13.5	30	81	8	326	30	29	18	21	1.97
406032--406211	96	1.9	94	83	4	236	30	29	19	21	1.97
406032--406247	96	2.3	94	79	5	229	29	28	20	21	1.98
408763--408792	14	2.1	14	100	0	60	43	23	0	33	1.54
410607--410771	87	1.9	88	84	3	226	39	10	20	29	1.86
410636--410965	88	3.8	87	78	6	242	39	9	21	30	1.85
413156--413225	20	3.5	20	77	12	74	38	15	14	31	1.88
413156--413278	19	6.6	19	68	21	64	37	17	16	29	1.91
413196--413331	53	2.6	53	97	0	254	36	18	17	27	1.94
413355--413385	10	3.1	10	90	0	53	22	29	6	41	1.78
413373--413428	21	2.6	22	94	5	105	26	25	10	37	1.88
413413--413444	14	2.3	14	94	0	55	34	28	3	34	1.73
413420--413465	23	2.0	23	86	0	65	28	26	6	39	1.81
413982--414048	37	1.9	35	88	11	102	32	11	25	29	1.92
421955--421996	3	14.0	3	100	0	84	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422329--422379	19	2.7	19	84	6	59	62	1	0	35	1.06
422506--422575	26	2.9	24	79	10	79	58	2	0	38	1.13
422507--422578	23	3.0	22	77	18	72	56	2	0	40	1.13
423048--423148	33	3.1	33	94	4	170	35	14	15	33	1.89
423081--423146	20	3.7	20	67	26	65	36	15	15	33	1.88
431740--431801	19	3.6	19	75	24	82	30	22	16	30	1.96
431759--431784	13	2.0	13	100	0	52	30	15	15	38	1.88
431740--431801	32	1.9	32	100	0	124	30	22	16	30	1.96
431873--431898	13	2.0	13	100	0	52	30	15	15	38	1.88
431853--431920	33	2.1	32	91	8	111	35	16	16	32	1.91
433186--433227	6	7.0	6	86	8	59	2	2	14	80	0.90
436809--437007	106	1.9	105	95	1	362	38	16	15	29	1.89
438092--438183	20	4.7	19	77	10	78	38	16	15	30	1.89
438766--438812	21	2.2	21	84	0	58	44	23	2	29	1.65
438773--438814	21	2.0	21	90	0	66	35	26	2	35	1.70
446763--446816	19	2.8	20	82	2	74	38	12	16	31	1.87
448741--448771	12	2.6	12	100	0	62	54	0	16	29	1.42
450964--450988	13	1.9	13	100	0	50	36	16	16	32	1.90
450946--451011	33	2.0	33	93	0	114	37	18	16	27	1.92
456642--457710	61	17.6	60	85	4	1290	24	27	20	28	1.99
456642--457710	123	8.8	120	83	5	1258	24	27	20	28	1.99
457728--458089	55	6.4	57	84	8	429	27	27	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458186--458279	42	2.3	40	81	7	100	19	29	10	40	1.85
458923--458985	19	3.7	18	72	24	55	34	11	15	38	1.83
458942--458966	13	1.9	13	100	0	50	36	16	16	32	1.90
458921--458993	32	2.3	32	92	0	119	35	10	16	36	1.84
459010--459051	21	2.0	21	100	0	84	42	9	19	28	1.82
459038--459063	13	2.0	13	100	0	52	30	15	15	38	1.88
461419--461657	51	4.6	51	80	6	259	30	24	11	33	1.91
461430--461657	103	2.2	104	86	3	309	30	25	12	31	1.92
461641--461712	27	2.6	27	86	6	92	23	31	20	23	1.98
461664--461940	79	3.5	79	91	3	452	25	27	15	31	1.96
461904--461974	27	2.6	27	79	2	88	21	28	22	28	1.99
465047--465227	52	3.5	52	93	0	308	27	16	18	37	1.93
465322--465346	13	1.9	13	100	0	50	32	16	16	36	1.90
465301--465366	32	2.0	33	94	2	116	36	16	12	34	1.86
466168--466775	43	12.7	53	74	15	179	32	16	24	25	1.96
466307--466374	22	3.1	21	66	26	52	30	17	25	26	1.97
466285--466775	43	10.7	43	80	11	523	31	18	25	25	1.98
466232--466781	92	5.9	92	93	0	920	31	17	24	26	1.97
466788--467115	33	10.0	34	89	6	502	20	17	34	27	1.95
466786--467120	65	5.2	65	89	4	516	20	17	34	28	1.95
467195--468016	31	25.7	31	78	12	536	31	15	31	21	1.94
467140--468016	131	6.8	131	77	12	642	32	15	31	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467832--468006	34	5.3	34	84	6	236	32	14	33	20	1.92
476234--476363	53	2.5	53	92	1	217	29	16	17	36	1.93
476440--476469	13	2.2	14	94	5	53	36	16	13	33	1.88
476424--476489	32	2.0	33	88	2	98	39	16	10	33	1.83
477302--477909	43	12.8	53	75	15	298	31	17	25	25	1.97
477353--477914	92	6.1	92	94	1	937	31	17	25	25	1.97
477902--478150	33	7.7	33	87	7	345	20	18	34	27	1.96
477902--478150	65	3.9	66	87	5	377	20	18	34	27	1.96
477911--478150	97	2.4	98	93	2	419	20	18	33	27	1.96
480306--480365	17	3.3	18	82	15	70	85	11	1	1	0.76

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