genome.fa.s25.2.7.7.80.10.50.1000.41.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: Scaffold25
Parameters: 2 7 7 80 10 50 1000
Length:  9553305

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  41  of  56  ( 6609 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)
6982793--6982835	22	2.0	21	81	9	50	41	0	11	46	1.40
6986327--6986684	42	8.5	42	73	6	211	40	14	25	18	1.90
6986441--6986549	43	2.6	43	86	5	143	37	15	30	16	1.90
6986701--6986828	42	3.0	42	76	2	121	39	15	25	18	1.90
6986626--6986973	152	2.3	152	95	0	617	40	15	25	17	1.89
6986868--6987066	42	4.7	42	77	1	164	41	16	23	19	1.90
6986868--6987022	84	1.8	85	87	1	231	40	16	25	18	1.91
6986854--6987066	85	2.5	84	80	0	237	41	15	22	20	1.90
6987093--6987633	42	12.9	42	73	8	237	39	14	24	21	1.90
6987164--6987618	168	2.7	167	74	4	423	39	14	25	21	1.90
6987158--6987595	126	3.5	125	72	10	338	39	13	25	21	1.90
6987650--6987828	42	4.3	42	81	2	189	39	14	26	18	1.90
6987649--6987834	84	2.2	84	80	0	219	40	14	26	18	1.89
6987858--6988742	42	21.4	42	71	11	352	41	14	25	18	1.89
6987669--6988020	193	1.8	193	79	2	411	40	15	25	19	1.90
6988067--6988198	67	1.9	68	89	4	203	43	15	26	15	1.86
6988288--6988732	168	2.6	166	78	6	448	41	14	24	19	1.89
6988585--6988765	43	4.3	42	76	10	154	42	13	23	20	1.88
6988805--6988895	42	2.2	42	80	7	105	46	15	21	16	1.84
6988828--6988978	42	3.6	41	80	3	142	41	11	25	21	1.87
6988595--6989147	236	2.3	236	80	4	605	43	14	23	18	1.87
6989068--6989150	42	2.0	42	85	0	112	42	14	25	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6989279--6989584	44	7.1	43	72	13	227	39	15	22	22	1.91
6989279--6989571	88	3.4	87	78	11	300	40	15	21	22	1.90
6989745--6990013	90	3.0	88	82	3	297	29	13	26	30	1.94
6989851--6990052	88	2.3	89	83	5	248	28	12	30	29	1.93
6997972--6998024	20	2.7	20	76	2	63	13	16	11	58	1.63
6998723--6998785	19	3.7	17	74	24	53	33	11	19	36	1.87
6998742--6998766	13	1.9	13	100	0	50	36	16	16	32	1.90
6998721--6998793	32	2.3	32	92	0	119	34	10	19	35	1.87
6998810--6998872	21	3.0	21	97	0	117	42	7	19	30	1.79
6998859--6998884	13	2.0	13	100	0	52	30	15	15	38	1.88
7001250--7001375	52	2.4	52	85	3	182	32	27	9	30	1.89
7001391--7001776	79	4.9	79	83	2	411	27	24	14	33	1.94
7001311--7001513	107	1.9	107	82	5	257	28	28	13	29	1.94
7014141--7014206	1	66.0	1	80	0	69	89	9	1	0	0.55
7014141--7014206	11	6.1	11	84	8	91	89	9	1	0	0.55
7014141--7014215	21	3.4	22	83	9	89	88	9	2	0	0.62
7014141--7014215	25	3.0	25	84	9	100	88	9	2	0	0.62
7015218--7015473	94	2.7	94	85	2	345	24	30	18	26	1.98
7015378--7015632	55	4.5	55	84	7	341	26	29	21	23	1.99
7015387--7015632	116	2.2	112	86	7	338	26	28	21	22	1.99
7015551--7015724	94	1.8	95	90	1	278	25	31	20	22	1.98
7015769--7015939	42	3.9	44	78	11	167	18	27	13	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7015769--7015942	89	2.0	85	84	6	224	18	27	13	41	1.87
7016699--7016844	19	8.6	19	73	24	148	33	12	21	32	1.90
7016718--7016806	13	5.9	13	72	27	70	34	13	20	31	1.91
7016697--7016825	32	4.0	32	100	0	258	34	12	21	31	1.91
7016869--7016910	21	2.0	21	100	0	84	42	9	19	28	1.82
7016897--7016922	13	2.0	13	100	0	52	30	15	15	38	1.88
7019278--7019409	52	2.5	53	79	14	150	33	24	11	31	1.90
7019346--7019654	79	3.9	77	80	5	305	31	25	11	31	1.91
7019631--7019705	27	2.8	25	86	8	96	24	33	20	22	1.97
7019568--7019777	105	2.0	106	82	6	257	28	27	14	29	1.95
7019658--7019811	76	2.0	79	86	6	217	25	27	14	32	1.95
7020972--7020997	13	2.0	13	100	0	52	30	15	15	38	1.88
7020953--7021015	32	2.0	32	87	6	92	28	15	15	39	1.89
7021056--7021108	20	2.7	20	100	0	106	33	20	15	30	1.93
7023370--7023416	21	2.3	21	76	23	55	42	4	19	34	1.70
7023537--7023575	13	3.0	13	96	0	69	35	15	17	30	1.91
7023561--7023639	20	3.7	20	78	15	77	44	15	15	25	1.85
7025648--7025685	15	2.5	15	91	0	58	13	21	15	50	1.78
7027489--7027533	22	2.1	21	84	8	56	22	17	4	55	1.60
7029751--7029776	13	2.0	13	100	0	52	30	15	15	38	1.88
7032762--7032797	18	2.0	18	94	0	63	30	33	8	27	1.86
7034767--7034801	18	2.0	17	88	5	52	22	8	17	51	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7042141--7042216	14	5.6	13	72	14	55	80	5	10	3	1.00
7043477--7045037	62	25.3	62	85	4	1928	23	25	19	31	1.98
7047636--7047672	13	2.8	13	87	0	56	32	10	18	37	1.86
7048855--7048999	50	2.9	50	82	2	184	26	16	15	41	1.88
7051299--7051757	79	5.8	78	80	8	439	27	24	13	34	1.93
7051390--7051753	157	2.3	156	85	6	468	28	24	13	33	1.93
7056228--7056266	17	2.3	17	90	0	60	5	35	10	48	1.59
7056362--7056396	3	11.7	3	87	0	52	28	31	0	40	1.57
7056360--7056398	9	4.3	9	86	0	51	25	30	0	43	1.55
7063832--7063865	9	3.7	9	92	4	50	50	14	2	32	1.58
7064095--7064128	9	3.7	9	92	4	50	50	14	2	32	1.58
7065401--7065455	17	3.7	15	80	11	51	1	5	10	81	0.92
7068583--7068658	20	3.8	20	82	1	80	40	14	14	30	1.86
7068697--7068722	13	2.0	13	100	0	52	38	15	15	30	1.88
7072788--7072819	15	2.1	15	94	0	55	46	15	21	15	1.83
7074834--7074945	20	5.7	20	72	23	94	25	15	13	45	1.82
7074898--7074969	13	6.0	13	76	18	84	27	16	13	41	1.87
7074879--7074956	33	2.4	33	100	0	156	25	15	12	46	1.81
7075092--7075134	20	2.2	19	84	16	52	30	20	4	44	1.72
7077383--7077436	20	2.7	21	82	5	67	38	16	14	29	1.89
7077496--7077521	13	2.0	13	100	0	52	38	15	15	30	1.88
7080388--7080451	33	2.0	33	84	3	85	40	15	12	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7081350--7081396	18	2.6	18	86	6	60	40	29	0	29	1.57
7086549--7086653	45	2.3	45	95	1	183	22	23	15	38	1.92
7088581--7088678	35	2.8	35	96	1	180	35	17	12	34	1.87
7091199--7091237	21	1.9	21	89	5	62	20	23	10	46	1.81
7096470--7096523	20	2.7	20	83	11	67	37	16	14	31	1.89
7096552--7096607	19	2.9	19	89	2	76	35	14	17	32	1.90
7096573--7096635	32	1.9	33	87	9	94	41	12	15	30	1.85
7098046--7098070	13	1.9	13	100	0	50	36	16	16	32	1.90
7098113--7098138	13	2.0	13	100	0	52	30	15	15	38	1.88
7098093--7098159	33	2.0	33	85	0	89	25	16	14	43	1.86
7100604--7100679	27	2.8	28	90	6	111	23	32	21	22	1.98
7100662--7100883	52	4.3	51	79	2	219	28	23	13	35	1.92
7100498--7100883	52	7.4	50	70	10	166	29	24	12	33	1.92
7100871--7100941	28	2.5	28	88	0	97	22	35	18	23	1.96
7100498--7100991	263	1.9	263	88	4	764	28	25	13	32	1.94
7100896--7101098	79	2.6	79	81	3	221	24	29	16	29	1.96
7103372--7103433	26	2.4	26	86	0	79	35	14	11	38	1.82
7103372--7103433	13	4.8	13	76	7	63	35	14	11	38	1.82
7107928--7107958	9	3.4	9	95	0	53	29	25	0	45	1.54
7109476--7109528	20	2.7	20	90	0	88	39	11	11	37	1.77
7109569--7109633	33	2.0	32	85	11	87	35	18	12	33	1.88
7111829--7111860	17	1.9	17	93	6	57	65	3	6	25	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7113536--7113808	29	9.6	28	74	10	171	28	29	12	29	1.93
7113611--7113871	57	4.6	54	76	8	171	28	29	12	29	1.93
7113698--7113871	28	6.2	27	81	3	132	27	29	13	29	1.94
7113703--7113911	84	2.4	86	78	7	217	26	30	11	30	1.92
7113963--7114246	52	5.5	52	75	6	227	25	21	15	37	1.93
7114902--7114958	19	2.9	20	78	5	71	40	10	17	31	1.84
7115608--7115636	15	2.0	15	93	6	51	48	37	6	6	1.57
7121337--7121379	21	2.0	21	81	9	50	37	4	2	55	1.33
7121364--7121587	112	2.0	113	83	5	285	45	15	12	26	1.81
7122936--7122971	18	2.0	18	100	0	72	16	22	16	44	1.86

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56