genome.fa.s64.2.7.7.80.10.50.1000.34.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   

This is table  34  of  45  ( 5312 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)
5993114--5993160	21	2.3	20	82	7	58	70	2	4	23	1.16
5993143--5993170	14	2.0	14	100	0	56	64	7	7	21	1.43
5993307--5993339	2	16.5	2	100	0	66	51	0	0	48	1.00
5995930--5996056	20	5.7	20	67	24	67	37	11	14	35	1.83
5995980--5996057	20	3.8	20	75	12	77	37	10	14	38	1.80
6000253--6000307	20	2.8	20	80	0	65	30	10	14	43	1.80
6001213--6001250	20	1.9	20	88	0	58	21	10	10	57	1.61
6003756--6003794	20	2.0	20	85	5	53	38	10	10	41	1.73
6003845--6003870	13	2.0	13	100	0	52	30	15	15	38	1.88
6012124--6012685	79	7.1	79	90	0	804	32	14	25	26	1.95
6012641--6012716	27	2.7	29	90	6	113	21	19	34	25	1.96
6014129--6014433	35	8.7	35	97	0	565	20	30	5	43	1.74
6014901--6015003	42	2.5	41	82	9	111	45	10	26	17	1.81
6015082--6015194	45	2.5	45	88	0	172	35	12	30	21	1.90
6015179--6015340	61	2.7	61	77	7	177	29	19	23	27	1.98
6020791--6021287	79	6.3	79	86	2	667	34	14	24	26	1.94
6021239--6021314	27	2.8	28	87	2	100	21	22	32	23	1.98
6022688--6022797	21	5.8	21	64	29	68	19	30	5	44	1.73
6022693--6022822	35	3.7	35	96	0	233	20	31	5	43	1.74
6022829--6022857	12	2.3	13	94	5	51	27	0	3	68	1.05
6027207--6027269	10	6.5	10	87	5	94	88	7	1	1	0.63
6027206--6027298	19	4.9	18	80	14	107	83	8	2	5	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6027207--6027306	28	3.6	27	78	17	107	84	9	3	4	0.86
6027207--6027269	1	63.0	1	77	0	63	88	7	1	1	0.63
6027207--6027298	9	9.8	9	77	13	96	84	8	2	4	0.83
6028569--6029060	28	17.5	28	86	2	630	28	31	17	21	1.96
6029009--6029081	30	2.5	28	82	10	83	27	31	17	23	1.97
6029202--6029314	49	2.4	45	80	11	120	23	27	18	30	1.97
6030762--6030800	20	2.1	19	85	9	53	23	10	10	56	1.63
6040446--6040494	23	2.1	23	100	0	98	20	34	26	18	1.95
6042229--6042539	171	1.8	170	89	2	489	46	10	11	30	1.74
6042728--6042753	8	3.2	8	100	0	52	46	0	0	53	1.00
6043296--6043324	3	9.7	3	100	0	58	34	0	0	65	0.93
6044336--6044425	11	8.4	11	67	26	50	43	0	0	56	0.99
6044383--6044447	23	2.7	23	83	4	76	38	1	0	60	1.07
6044720--6044762	2	22.0	2	80	4	52	51	0	2	46	1.13
6047251--6047279	15	1.9	15	100	0	58	41	0	3	55	1.17
6049577--6049677	51	2.0	50	98	1	193	36	15	21	25	1.93
6051421--6051478	23	2.6	22	89	7	91	65	8	8	17	1.45
6051421--6051478	22	2.7	23	92	7	95	65	8	8	17	1.45
6052386--6052460	20	3.8	20	82	3	89	41	12	12	34	1.79
6052383--6052460	40	2.0	39	85	7	104	41	12	11	34	1.80
6053069--6054367	27	46.2	28	87	4	766	24	16	33	25	1.96
6053671--6054404	163	4.5	162	92	2	1157	28	14	33	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6053671--6054404	27	26.9	27	91	1	1144	28	14	33	23	1.94
6060107--6060208	51	2.0	51	98	0	195	37	14	21	26	1.92
6061950--6062007	23	2.6	22	89	7	91	65	8	8	17	1.45
6061950--6062007	22	2.7	23	92	7	95	65	8	8	17	1.45
6062916--6062990	20	3.8	20	80	3	80	40	12	13	34	1.81
6062913--6062990	40	2.0	39	87	2	111	39	12	12	34	1.82
6065825--6065884	27	2.2	27	82	5	68	48	0	3	48	1.18
6068176--6068227	19	2.7	20	88	5	72	42	0	0	57	0.98
6068194--6068234	5	8.4	5	91	5	66	36	0	0	63	0.95
6072591--6072621	14	2.2	14	94	0	53	41	3	0	54	1.16
6078294--6078318	2	12.5	2	100	0	50	52	0	0	48	1.00
6081212--6081282	32	2.2	32	94	0	124	42	1	11	45	1.48
6082602--6082639	18	2.1	18	85	9	51	63	0	2	34	1.09
6083626--6083685	29	2.0	29	83	3	75	35	10	0	55	1.34
6086657--6086708	15	3.4	15	81	7	61	34	0	0	65	0.93
6086859--6086896	18	2.1	18	90	9	60	36	15	0	47	1.46
6087938--6088007	22	3.3	22	75	11	58	42	1	0	55	1.08
6087965--6088028	19	3.4	19	81	14	71	45	0	0	54	0.99
6088107--6088159	20	2.6	20	80	11	54	35	13	0	50	1.41
6094575--6094672	51	1.9	51	85	4	135	35	25	13	25	1.92
6094768--6094889	58	2.1	58	85	3	163	33	9	13	43	1.76
6095676--6095721	20	2.2	21	84	3	58	36	15	10	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6096622--6096691	27	2.6	27	95	2	124	18	17	40	24	1.91
6101240--6101314	26	2.8	26	97	2	141	32	18	20	29	1.96
6102606--6102670	7	9.7	7	78	6	55	53	24	0	21	1.46
6106171--6106203	16	2.1	16	100	0	66	30	24	9	36	1.86
6106815--6106849	16	2.2	17	90	10	56	20	0	0	80	0.72
6107217--6107252	16	2.2	16	90	0	54	52	22	5	19	1.66
6107850--6107963	53	2.2	53	86	0	165	8	25	9	56	1.60
6108176--6108930	44	17.4	43	74	7	531	39	16	27	15	1.90
6108176--6108994	88	9.4	88	76	5	628	39	16	27	16	1.89
6108310--6108476	86	1.9	88	85	4	232	42	17	25	14	1.87
6108176--6108921	130	5.7	129	80	6	542	39	16	27	15	1.90
6110037--6110071	11	3.1	11	87	4	52	0	14	0	85	0.59
6110039--6110071	13	2.5	13	86	13	50	0	12	0	87	0.53
6121908--6121942	16	2.2	16	89	0	52	51	22	5	20	1.68
6122539--6122647	53	2.0	54	89	1	166	9	24	9	56	1.59
6123053--6123104	21	2.6	21	85	8	65	19	0	5	75	1.01
6123058--6123119	17	3.3	18	84	8	63	19	1	3	75	1.02
6127596--6127671	38	2.0	39	94	2	136	36	11	18	32	1.87
6128237--6128293	19	2.9	19	89	2	87	31	15	17	35	1.92
6128337--6128389	13	4.5	13	71	26	55	32	11	16	39	1.85
6132180--6132232	20	2.6	21	87	3	72	37	11	18	32	1.87
6132262--6132315	20	2.7	20	88	0	72	29	14	9	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6136941--6136996	19	2.9	19	86	2	76	37	17	14	30	1.90
6139297--6139338	22	1.9	23	85	9	61	52	0	16	30	1.44
6143772--6143827	19	2.9	19	86	2	67	35	14	16	33	1.88
6159250--6159277	6	4.7	6	100	0	56	0	17	0	82	0.68
6159799--6159874	27	2.8	27	83	2	89	48	5	6	39	1.52
6160407--6160471	33	2.0	32	87	3	94	35	13	13	36	1.85
6160443--6160489	19	2.4	19	85	3	58	36	10	12	40	1.78
6160551--6160613	23	2.7	23	95	0	108	25	22	7	44	1.79
6160608--6160663	13	4.8	13	71	24	52	32	10	23	33	1.89
6160609--6160685	33	2.3	33	97	0	145	35	10	22	32	1.88
6161140--6161208	36	1.9	35	82	8	86	34	10	26	28	1.89
6161484--6161694	116	1.8	116	81	2	262	26	15	12	45	1.81
6161649--6161700	21	2.5	20	76	11	52	26	9	21	42	1.83
6162040--6162074	11	3.2	11	95	0	61	40	0	0	60	0.97
6162060--6162117	28	2.2	26	81	9	64	37	8	5	48	1.56
6162070--6162129	28	2.1	28	81	6	68	40	10	8	41	1.69
6163047--6163113	37	1.9	35	88	11	102	29	25	11	32	1.92
6163572--6163597	13	2.0	13	100	0	52	30	15	15	38	1.88
6165404--6165428	13	1.9	13	100	0	50	32	16	16	36	1.90
6165983--6166029	23	2.0	24	84	12	62	59	19	4	17	1.53
6168608--6168674	37	1.9	35	88	11	102	29	25	11	32	1.92
6169133--6169158	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6170283--6170326	2	22.0	2	95	0	79	50	2	0	47	1.13
6170349--6170527	38	4.7	38	80	0	160	39	17	13	29	1.88
6170352--6170526	76	2.3	76	80	2	199	38	18	13	29	1.88
6171324--6171373	21	2.4	22	80	10	59	42	8	4	46	1.52
6176464--6176594	43	3.0	44	85	2	158	40	17	12	29	1.86
6178051--6178092	22	1.9	22	95	0	75	19	14	21	45	1.85
6181189--6181308	43	2.8	43	89	2	179	40	18	15	25	1.89
6183578--6183653	16	4.7	16	74	18	59	56	0	0	43	0.99
6183569--6183682	32	3.9	28	75	19	99	57	0	0	42	1.05
6183557--6183659	34	2.9	37	75	19	110	59	0	0	40	0.98

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