genome.fa.s160.2.7.7.80.10.50.1000.4.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  4  of  30  ( 3592 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)
437316--437376	32	2.0	30	87	6	86	34	3	3	59	1.30
437609--437728	60	2.0	60	95	0	213	40	6	7	45	1.59
438070--438122	26	2.1	26	85	3	72	33	1	13	50	1.52
441287--441542	127	2.0	127	96	0	476	35	14	16	33	1.90
441533--441588	21	2.7	21	88	0	76	28	19	14	37	1.91
441629--441698	20	3.4	20	82	7	70	40	11	17	31	1.85
441746--441798	24	2.2	24	86	6	72	33	15	7	43	1.74
443176--443214	21	2.0	20	90	10	62	41	15	15	28	1.87
443305--443372	20	3.4	20	83	0	91	30	11	14	42	1.82
449971--449997	13	2.1	13	100	0	54	29	14	14	40	1.86
451655--451685	3	10.3	3	92	0	53	35	0	35	29	1.58
452844--452921	33	2.3	34	82	4	95	39	2	25	32	1.69
452864--452930	33	2.1	32	94	2	116	34	2	19	43	1.66
453631--453684	20	2.7	20	85	0	63	35	12	14	37	1.85
462205--462306	1	102.0	1	74	0	69	85	12	0	1	0.69
462206--462306	7	13.9	7	78	15	107	85	12	0	1	0.69
462205--462306	25	4.2	24	84	14	122	85	12	0	1	0.69
462205--462306	43	2.4	42	84	10	129	85	12	0	1	0.69
463955--463980	13	2.0	13	100	0	52	38	15	15	30	1.88
464029--464100	19	3.7	19	83	1	81	36	15	19	29	1.92
466486--466582	48	2.0	48	90	4	151	36	3	31	28	1.73
466495--466594	48	2.1	48	86	3	139	32	2	38	28	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472867--472919	19	2.8	19	82	5	72	33	15	20	30	1.93
472888--472935	19	2.5	19	86	3	60	35	14	20	29	1.93
473128--473343	28	7.4	27	77	13	166	31	33	16	18	1.94
473131--473343	115	1.8	117	80	11	260	30	33	16	18	1.94
480242--480288	20	2.3	21	88	3	69	40	17	4	38	1.69
485163--485188	13	2.0	13	100	0	52	38	15	15	30	1.88
485145--485209	32	2.0	34	87	6	98	41	16	13	27	1.87
491399--491441	20	2.2	19	84	16	52	30	20	4	44	1.72
493831--493856	13	2.0	13	100	0	52	38	15	15	30	1.88
497216--497615	148	2.7	148	84	3	511	40	19	16	24	1.91
497218--497672	148	3.1	148	82	3	454	40	18	16	24	1.91
498164--498188	13	1.9	13	100	0	50	32	16	16	36	1.90
498144--498211	33	2.1	33	88	2	102	36	16	14	32	1.89
501031--501127	51	1.9	51	87	4	142	35	22	7	35	1.82
501065--501447	79	4.9	79	75	9	327	27	25	12	34	1.92
500934--501205	130	2.1	128	79	6	289	30	24	11	33	1.91
503266--503519	52	4.9	52	79	5	228	40	15	20	23	1.91
503220--503519	156	1.9	156	80	4	354	38	15	21	24	1.92
503109--503519	104	3.9	104	76	7	352	38	15	21	24	1.92
503659--503813	28	5.4	28	77	9	125	22	16	30	30	1.96
503654--503867	56	3.6	56	75	12	171	21	17	31	29	1.96
503774--503883	32	3.4	32	86	7	159	19	14	36	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510619--510691	36	2.0	36	94	0	128	34	10	19	35	1.87
515114--515151	20	1.9	20	94	0	67	34	15	10	39	1.82
522836--522895	28	2.1	28	93	6	104	28	21	11	38	1.89
523602--523639	20	1.9	20	94	0	67	34	21	10	34	1.87
523695--523756	32	1.9	32	86	3	88	40	14	14	30	1.86
523856--523899	22	2.0	22	86	4	63	40	9	4	45	1.56
524674--524977	157	1.9	156	82	4	371	30	11	8	50	1.67
525546--525593	9	5.1	9	82	12	53	83	0	14	2	0.74
525546--525593	20	2.5	19	83	9	62	83	0	14	2	0.74
526403--526435	13	2.8	12	86	13	50	75	0	0	24	0.80
526934--527233	155	1.9	155	82	4	372	25	16	19	39	1.92
526915--527261	155	2.2	154	80	6	369	26	15	19	38	1.92
528309--528376	34	2.0	34	83	11	86	76	4	11	7	1.13
534955--535712	60	12.6	60	74	10	409	24	22	11	41	1.87
535072--535256	30	6.2	30	70	13	89	25	23	10	40	1.87
534955--535750	120	6.6	121	78	5	672	24	22	11	41	1.87
535565--535664	30	3.3	30	68	10	78	26	22	10	42	1.84
535426--535756	60	5.5	60	77	7	244	24	22	11	41	1.87
537733--537780	9	5.1	9	80	14	53	85	0	14	0	0.60
537740--537774	13	2.8	13	91	4	54	85	0	14	0	0.59
537733--537780	20	2.6	18	84	12	69	85	0	14	0	0.60
537733--537780	19	2.6	18	84	15	62	85	0	14	0	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540262--540319	19	3.1	18	85	11	80	36	15	15	32	1.89
540263--540318	20	2.8	20	89	7	80	33	16	16	33	1.91
541996--542029	9	3.8	9	88	0	50	44	0	26	29	1.55
546735--546776	22	2.0	22	86	13	63	33	21	0	45	1.52
546731--546776	20	2.3	20	82	17	60	30	21	0	47	1.51
548992--549038	20	2.3	20	100	0	94	29	10	25	34	1.90
549186--549247	33	1.9	32	87	9	90	37	12	16	33	1.87
552320--553273	155	6.2	155	75	9	765	38	20	17	23	1.93
554810--554849	10	4.0	11	81	18	52	7	15	0	77	0.98
554939--554979	21	2.0	21	85	9	57	12	17	0	70	1.16
556286--556447	83	2.0	83	91	0	261	32	16	14	37	1.88
556431--556460	13	2.3	13	94	0	51	36	10	16	36	1.82
556505--556577	20	3.7	19	79	3	74	39	13	16	30	1.87
556505--556558	19	2.8	20	82	2	74	38	12	16	31	1.87
559170--559194	12	2.1	12	100	0	50	40	16	20	24	1.91
559259--559299	21	2.0	21	85	9	57	36	12	14	36	1.84
566709--566761	19	2.7	19	91	2	79	37	13	18	30	1.89
566746--566772	13	2.1	13	100	0	54	40	14	14	29	1.86
568656--568694	19	2.1	19	100	0	78	30	5	17	46	1.70
572294--572346	20	2.6	21	87	3	72	39	11	18	30	1.86
572385--572410	13	2.0	13	100	0	52	38	15	15	30	1.88
574625--574669	21	2.1	21	84	8	56	53	4	20	22	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578042--578080	13	3.0	13	96	0	69	30	17	15	35	1.91
578203--578245	20	2.2	19	84	16	52	30	20	4	44	1.72
580536--580588	20	2.6	21	87	3	72	39	11	18	30	1.86
580627--580652	13	2.0	13	100	0	52	38	15	15	30	1.88
581887--581944	21	2.7	22	80	15	68	50	1	25	22	1.59
584118--584162	21	2.1	21	88	8	65	13	0	0	86	0.57
584118--584161	15	3.2	14	87	9	56	13	0	0	86	0.57
585094--585150	19	2.9	19	86	2	78	35	15	14	35	1.88
587930--587993	33	2.0	33	84	3	85	43	15	12	28	1.83
592608--592643	13	2.8	13	91	0	54	38	16	8	36	1.79
594284--594371	31	2.8	31	93	5	151	34	10	23	31	1.88
594949--595002	20	2.8	20	88	2	74	29	14	20	35	1.93
601678--602135	61	7.6	60	76	5	402	23	23	12	40	1.88
601650--602135	121	4.0	121	84	1	598	23	23	12	41	1.88
602002--602104	30	3.4	30	76	5	109	22	21	13	42	1.87
601672--602135	242	1.9	242	86	0	669	23	23	12	40	1.88
602092--602166	31	2.4	31	86	0	105	28	20	10	41	1.85
602148--602262	60	1.9	60	89	3	178	26	21	12	40	1.88
601973--602258	152	1.9	152	85	2	396	24	22	12	41	1.88
602253--602445	60	3.2	60	84	1	235	23	19	10	45	1.82
602026--602411	30	12.8	30	66	13	84	23	21	12	42	1.86
602331--602422	30	3.1	30	67	6	78	22	16	13	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602283--602481	60	3.3	60	82	1	175	23	21	10	44	1.83
602194--602480	120	2.4	120	76	2	263	23	21	11	43	1.84
603553--604008	166	2.8	163	80	6	456	30	8	10	50	1.67
605554--605587	12	2.8	13	91	8	54	79	0	0	20	0.73
605554--605587	13	2.8	12	86	8	50	79	0	0	20	0.73
609530--609658	52	2.5	51	82	7	156	43	13	14	28	1.83
609696--609747	20	2.5	21	90	3	79	32	19	9	38	1.84
610264--610771	52	9.7	52	79	4	468	37	13	22	26	1.91
610295--610807	105	4.9	103	79	5	485	38	13	22	26	1.91
610263--610771	157	3.2	155	82	3	592	37	13	22	26	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30