genome.fa.s44.2.7.7.80.10.50.1000.3.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: Scaffold44
Parameters: 2 7 7 80 10 50 1000
Length:  3265628

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

This is table  3  of  17  ( 1994 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)
344916--344967	17	3.1	17	77	2	61	34	0	0	65	0.93
345922--345965	15	2.9	15	86	3	52	43	2	0	54	1.12
346716--346804	47	2.0	44	82	8	108	43	6	8	40	1.62
350033--350091	3	19.7	3	100	0	118	67	0	0	32	0.91
353841--353880	20	2.0	20	95	0	71	42	15	0	42	1.46
353885--353974	47	1.9	47	81	4	110	30	4	22	43	1.73
357376--357427	26	2.0	26	100	0	104	30	15	11	42	1.82
359375--359414	19	2.1	19	86	13	55	32	5	0	62	1.17
360366--360398	2	16.5	2	100	0	66	48	0	0	51	1.00
361249--361286	20	1.9	20	94	0	67	47	0	0	52	1.00
361270--361299	11	2.6	11	94	5	51	36	0	0	63	0.95
361879--361905	7	3.9	7	100	0	54	70	0	0	29	0.88
363332--363360	14	2.0	15	93	6	51	37	0	0	62	0.96
363846--364138	149	2.0	147	88	2	435	38	5	11	45	1.63
365368--365487	64	1.9	64	89	0	186	30	26	16	25	1.97
369833--369901	36	1.9	36	96	0	129	34	27	8	28	1.87
372677--372715	16	2.6	14	84	11	51	48	0	0	51	1.00
372677--372722	15	3.1	14	84	12	56	47	0	0	52	1.00
372978--373028	26	1.9	27	88	4	77	1	19	1	76	0.98
373225--373260	19	1.9	19	88	5	56	63	0	33	2	1.08
373249--373281	13	2.4	14	85	5	50	87	0	9	3	0.63
377397--377527	51	2.6	51	87	4	185	40	12	18	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377492--377546	20	2.8	20	91	2	85	47	9	16	27	1.76
377940--377980	21	2.0	20	90	4	64	34	14	21	29	1.93
392460--392515	21	2.7	21	94	0	94	33	8	19	37	1.83
392647--392672	13	2.0	13	100	0	52	30	15	15	38	1.88
392630--392693	34	1.9	33	90	3	101	26	17	12	43	1.84
395149--395220	27	2.6	28	87	10	96	25	31	19	23	1.98
395036--395421	51	7.4	51	73	11	273	30	25	11	32	1.92
395406--395482	28	2.8	28	83	0	91	23	31	19	25	1.98
396605--396666	33	1.9	32	90	3	97	29	12	17	40	1.87
399394--399431	18	2.1	18	90	0	58	31	0	36	31	1.58
400893--400923	16	1.9	16	93	0	53	80	3	0	16	0.83
401158--401182	2	12.5	2	100	0	50	52	0	0	48	1.00
402667--402706	20	2.0	20	90	0	62	75	0	5	20	0.99
407598--407793	106	1.9	106	85	6	274	41	6	8	43	1.62
407932--407990	22	2.8	21	76	19	61	45	1	1	50	1.21
408170--408207	18	2.1	18	85	9	51	44	0	2	52	1.14
408178--408218	18	2.2	19	86	4	57	48	0	0	51	1.00
410405--410434	2	15.0	2	92	0	51	50	3	0	46	1.18
414593--414631	17	2.3	17	82	13	53	41	2	5	51	1.38
415562--415605	23	2.0	23	86	4	63	47	2	9	40	1.48
416762--416808	17	2.8	18	87	9	64	31	0	0	68	0.90
422303--422365	32	2.0	32	90	0	99	34	20	11	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422303--422366	19	3.7	19	66	23	59	35	20	10	32	1.87
426459--426571	36	3.1	36	80	8	122	35	15	10	38	1.81
429136--429211	20	3.8	20	80	1	100	32	9	11	46	1.72
429227--429253	14	1.9	14	100	0	54	29	14	14	40	1.86
430158--430198	20	2.2	19	83	16	50	24	21	9	43	1.83
430786--430810	13	1.9	13	100	0	50	36	16	16	32	1.90
430766--430831	32	2.0	33	88	2	98	33	12	15	39	1.84
430872--430896	13	1.9	13	100	0	50	32	16	16	36	1.90
436740--436803	16	3.5	20	72	22	59	28	7	1	62	1.32
441217--441259	20	2.0	22	86	8	63	16	11	23	48	1.78
442638--442884	97	2.5	97	90	0	404	29	14	29	25	1.95
445036--445086	20	2.5	20	87	0	75	39	13	13	33	1.84
446005--446040	16	2.2	16	90	0	54	58	11	16	13	1.63
447666--447798	68	2.0	68	92	0	221	34	16	12	36	1.86
451655--451701	21	2.2	21	88	0	67	23	17	0	59	1.37
452168--452205	3	12.7	3	83	10	51	28	34	0	36	1.58
453079--453124	23	2.1	22	84	8	58	45	15	8	30	1.76
454374--454446	20	3.6	20	81	3	101	36	13	17	31	1.89
454391--454467	21	3.7	21	77	6	86	42	11	16	28	1.84
454374--454467	41	2.3	41	94	3	163	39	12	18	29	1.88
454506--454531	13	2.0	13	100	0	52	38	15	15	30	1.88
458563--458593	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460672--460710	13	3.0	13	96	0	69	30	17	15	35	1.91
463153--463225	20	3.6	20	81	3	101	36	13	17	31	1.89
463170--463246	21	3.7	21	77	6	86	42	11	16	28	1.84
463153--463246	41	2.3	41	94	3	163	39	12	18	29	1.88
463285--463310	13	2.0	13	100	0	52	38	15	15	30	1.88
468554--468599	23	2.0	23	86	0	65	28	2	13	56	1.48
468754--468831	20	3.7	20	74	15	75	26	15	15	42	1.87
468820--468857	13	2.9	13	96	0	67	34	18	15	31	1.92
471337--471409	20	3.6	20	81	3	101	35	13	19	31	1.91
471355--471430	21	3.7	21	80	3	100	42	11	17	28	1.84
471337--471430	41	2.3	41	98	0	179	39	12	18	29	1.88
471469--471494	13	2.0	13	100	0	52	38	15	15	30	1.88
473480--473533	13	4.0	13	95	4	90	29	14	14	40	1.86
473600--473630	13	2.4	13	94	0	53	35	16	12	35	1.87
473584--473650	33	2.0	32	86	11	91	37	13	17	31	1.89
479943--479987	22	2.0	22	82	8	54	28	22	0	48	1.50
482305--482331	13	2.1	13	100	0	54	29	14	14	40	1.86
482286--482350	32	2.0	32	90	3	103	26	16	16	40	1.90
482315--482372	19	2.9	19	87	5	80	32	15	17	34	1.91
482417--482447	13	2.4	13	94	0	53	35	16	12	35	1.87
482401--482467	33	2.0	32	88	11	100	35	13	17	32	1.89
483594--483703	31	3.5	31	69	14	84	32	25	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483584--483811	64	3.6	63	79	9	187	32	25	15	26	1.95
483653--483811	64	2.4	67	84	3	207	32	23	16	26	1.96
483686--483944	36	7.5	36	70	12	145	34	23	15	25	1.94
483686--483939	104	2.5	103	83	7	295	34	24	15	25	1.95
483773--483986	36	6.1	36	73	13	133	35	24	16	22	1.95
483975--484318	29	12.2	29	74	9	212	34	27	13	24	1.92
483992--484320	57	5.9	57	76	9	275	34	27	12	24	1.92
483994--484190	109	1.8	109	86	2	288	33	28	14	23	1.94
491934--491970	2	18.5	2	100	0	74	48	0	0	51	1.00
492649--492684	2	18.5	2	94	5	65	50	0	0	50	1.00
495711--495775	3	21.7	3	96	0	121	0	35	0	64	0.94
499692--499727	3	12.3	3	88	5	56	27	0	0	72	0.85
499718--499759	21	2.0	21	90	0	66	47	0	0	52	1.00
503295--503363	27	2.6	27	86	4	95	47	17	5	28	1.70
507855--507935	27	3.0	26	80	7	81	49	17	4	28	1.67
514248--514465	34	6.4	34	83	2	251	26	7	24	41	1.82
514248--514465	102	2.1	101	87	1	310	26	7	24	41	1.82
519810--519933	52	2.4	51	94	1	212	28	17	18	35	1.94
519810--519953	52	2.8	51	88	5	202	29	17	18	34	1.94
519942--519966	13	1.9	13	100	0	50	36	16	16	32	1.90
520007--520073	33	2.0	33	88	0	98	40	13	11	34	1.81
520029--520053	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522256--522474	34	6.5	34	82	3	246	26	8	25	40	1.83
522256--522474	102	2.2	101	86	1	303	26	8	25	40	1.83
525442--525485	11	4.1	11	86	13	65	34	0	0	65	0.93
525440--525505	15	4.2	16	74	14	50	39	0	0	60	0.97
525470--525516	25	1.9	24	86	4	67	48	0	0	51	1.00
525471--525529	25	2.4	25	82	2	66	50	0	0	49	1.00
525794--525827	3	11.3	3	93	0	59	29	0	0	70	0.87
527939--527969	3	10.3	3	92	0	53	29	0	0	70	0.87
535622--535656	18	1.9	18	100	0	70	17	5	31	45	1.71
535624--535665	18	2.3	18	87	0	57	21	7	23	47	1.75

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