genome.fa.s72.2.7.7.80.10.50.1000.36.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  36  of  39  ( 4596 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)
5218051--5218124	29	2.5	28	80	12	78	64	0	0	35	0.94
5223357--5223391	18	1.9	18	88	0	52	54	0	0	45	0.99
5224117--5224144	2	14.0	2	100	0	56	50	0	0	50	1.00
5225539--5225739	5	41.8	5	70	19	119	59	0	0	39	1.08
5225539--5225739	25	8.2	26	72	19	139	59	0	0	39	1.08
5225541--5225674	52	2.6	51	82	13	159	59	1	0	38	1.12
5225538--5225739	8	22.6	9	66	24	74	59	0	0	39	1.08
5225555--5225674	23	4.7	24	72	18	82	60	0	0	38	1.09
5226471--5226567	32	2.9	32	80	11	115	52	0	1	46	1.07
5226503--5226577	27	2.7	27	80	16	73	57	0	1	41	1.07
5226450--5226606	57	2.8	56	76	14	146	55	0	2	42	1.13
5229281--5229322	21	2.0	21	86	9	59	47	0	0	52	1.00
5229308--5229358	21	2.5	20	81	9	66	62	0	0	37	0.95
5230160--5230230	26	2.5	29	82	15	87	56	2	1	39	1.23
5230381--5230432	25	2.1	25	82	13	63	28	7	3	59	1.43
5233083--5233109	2	13.5	2	100	0	54	51	0	0	48	1.00
5233675--5233755	34	2.3	35	76	14	87	53	0	0	46	1.00
5236145--5236233	33	2.7	33	91	0	133	49	8	37	4	1.55
5236146--5236200	15	3.5	15	72	13	56	47	9	41	1	1.46
5238561--5238620	23	2.7	22	70	14	59	38	0	0	61	0.96
5238603--5238650	21	2.2	22	81	7	62	27	2	2	68	1.11
5240160--5240194	15	2.5	15	90	9	56	28	2	0	68	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5240279--5240316	3	12.7	3	88	0	58	65	2	2	28	1.19
5240713--5240768	24	2.4	24	87	3	78	42	0	0	57	0.99
5240713--5240746	17	2.1	17	88	5	52	50	0	0	50	1.00
5240715--5240768	16	3.4	16	80	14	60	40	0	0	59	0.98
5241112--5241159	25	1.9	25	91	0	78	56	0	0	43	0.99
5241105--5241161	24	2.5	22	78	15	64	56	0	0	43	0.99
5246134--5246160	13	2.1	13	100	0	54	55	0	0	44	0.99
5253256--5253345	6	15.2	6	75	6	51	36	5	0	57	1.22
5256578--5256611	17	1.9	18	88	5	52	58	2	0	38	1.13
5257696--5257742	14	3.3	14	80	14	60	51	2	0	46	1.13
5257926--5258017	2	47.5	2	72	14	59	42	4	4	48	1.42
5258473--5258518	17	2.7	17	86	6	58	56	2	0	41	1.11
5258991--5259048	30	1.9	31	86	10	84	39	8	5	46	1.57
5259142--5259198	25	2.2	26	87	12	82	54	0	1	43	1.10
5259599--5259666	32	2.1	32	83	0	82	30	10	17	41	1.83
5259772--5259811	3	13.7	3	89	5	64	62	0	2	35	1.09
5259779--5259811	17	1.9	17	100	0	66	60	0	3	36	1.12
5261013--5261052	20	2.1	19	85	4	53	47	0	0	52	1.00
5263232--5263309	29	2.7	29	81	2	84	51	0	3	44	1.19
5263245--5263309	29	2.2	29	83	0	85	53	0	1	44	1.09
5263437--5263491	8	6.5	8	77	10	56	36	0	0	63	0.95
5263517--5263595	33	2.5	31	76	11	88	50	1	0	48	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5263655--5263801	77	1.9	77	87	5	217	47	2	4	45	1.35
5264423--5264567	62	2.3	61	88	3	209	55	2	2	40	1.23
5266873--5266913	14	2.9	14	81	0	55	39	0	0	60	0.96
5266884--5266931	23	2.1	22	88	3	69	43	0	0	56	0.99
5268308--5268347	20	2.1	20	86	9	57	57	2	5	35	1.34
5268347--5268489	11	12.9	11	72	15	98	39	0	0	60	1.02
5268417--5268497	29	2.7	30	75	18	78	35	0	0	64	0.94
5269017--5269070	22	2.4	22	87	3	72	42	12	7	37	1.72
5269111--5269152	14	3.0	14	79	10	50	59	0	0	40	0.97
5269130--5269180	26	2.0	24	85	7	66	58	0	0	41	0.98
5270077--5270108	2	16.0	2	100	0	64	50	0	0	50	1.00
5274789--5274849	9	6.5	10	73	17	51	36	0	0	63	0.94
5274794--5274846	10	5.1	11	76	17	51	37	0	0	62	0.96
5274799--5274881	27	3.2	26	75	19	75	39	1	0	59	1.05
5278198--5278227	4	7.8	4	92	7	53	76	0	23	0	0.78
5278645--5278695	10	4.6	11	76	16	52	76	1	21	0	0.88
5279055--5279111	22	2.6	22	81	10	64	22	1	3	71	1.10
5279077--5279112	19	2.0	19	89	10	58	19	0	5	75	1.00
5279543--5279626	37	2.3	38	77	10	93	32	4	2	60	1.30
5280023--5280052	15	1.9	16	93	6	53	40	0	0	60	0.97
5280515--5280552	20	2.1	19	85	14	53	57	2	0	39	1.12
5284321--5284377	23	2.5	24	82	5	64	50	1	0	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5284462--5284491	15	2.0	15	93	0	51	56	0	0	43	0.99
5285858--5285910	1	53.0	1	100	0	106	100	0	0	0	0.00
5289556--5289612	23	2.7	21	81	10	71	61	0	1	36	1.07
5299036--5299088	8	6.2	8	79	16	54	71	0	28	0	0.86
5299036--5299088	16	3.1	17	84	13	65	71	0	28	0	0.86
5299036--5299077	9	4.6	9	85	14	59	73	0	26	0	0.83
5299667--5299714	17	2.7	18	77	6	53	56	0	0	43	0.99
5303962--5304039	29	2.7	29	81	2	84	51	0	3	44	1.19
5303975--5304039	29	2.2	29	83	0	85	53	0	1	44	1.09
5304167--5304220	8	6.5	8	77	14	56	37	0	0	62	0.95
5304246--5304324	33	2.5	31	76	11	88	50	1	0	48	1.08
5305148--5305292	62	2.3	61	88	3	209	55	2	2	40	1.23
5305148--5305242	31	3.1	31	67	10	86	54	2	1	42	1.19
5305169--5305274	31	3.4	31	72	10	99	53	0	2	42	1.22
5308311--5308378	27	2.6	27	79	13	70	52	0	2	44	1.16
5309012--5309050	20	2.0	20	85	9	55	58	2	5	33	1.33
5309102--5309156	22	2.5	22	85	8	76	34	0	0	65	0.93
5309137--5309180	14	3.1	14	81	12	54	38	0	0	61	0.96
5309127--5309188	19	3.4	19	77	18	62	35	0	0	64	0.94
5309109--5309197	16	5.2	17	68	24	53	37	0	0	62	0.95
5309716--5309769	22	2.4	22	87	3	72	42	12	7	37	1.72
5309810--5309851	14	3.0	14	79	10	50	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5309829--5309877	24	2.0	24	85	14	66	59	0	0	40	0.98
5309867--5309915	24	2.0	24	88	7	73	42	0	2	55	1.11
5309880--5309939	18	3.3	18	73	13	68	41	0	1	56	1.09
5309896--5309954	15	4.5	15	70	27	53	40	0	3	55	1.16
5309907--5309964	13	4.6	13	70	23	52	37	0	1	60	1.07
5309872--5309964	37	2.5	37	98	1	177	39	0	2	58	1.10
5310812--5310843	2	16.0	2	100	0	64	50	0	0	50	1.00
5315523--5315558	9	3.9	9	85	7	54	33	0	0	66	0.92
5315528--5315595	26	2.6	26	79	13	68	38	0	1	60	1.06
5315633--5315677	15	2.9	16	80	9	58	44	0	0	55	0.99
5315622--5315676	22	2.4	23	82	11	69	43	0	0	56	0.99
5315635--5315682	15	3.1	15	78	3	51	45	2	0	52	1.12
5319079--5319130	4	12.2	4	76	11	50	73	0	26	0	0.84
5319088--5319127	18	2.2	19	86	13	57	72	0	27	0	0.85
5319524--5319559	19	2.0	19	89	10	58	19	0	5	75	1.00
5320442--5320471	15	1.9	16	93	6	53	40	0	0	60	0.97
5324733--5324789	23	2.5	24	82	5	64	50	1	0	47	1.11
5324875--5324904	15	2.0	15	93	0	51	56	0	0	43	0.99
5328021--5328059	19	2.1	18	85	4	51	35	0	2	61	1.10
5328223--5328247	5	5.0	5	100	0	50	60	0	0	40	0.97
5329068--5329114	22	2.1	22	88	0	67	55	2	0	42	1.12
5329060--5329114	20	2.7	22	81	10	64	56	1	0	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5329066--5329122	18	2.9	18	78	19	53	56	1	0	42	1.10
5333349--5333388	20	2.0	20	85	9	55	70	0	0	30	0.88
5333343--5333388	19	2.4	19	76	20	51	65	0	0	34	0.93
5334343--5334384	18	2.4	18	81	14	52	38	0	0	61	0.96
5334365--5334438	30	2.4	30	82	11	87	55	0	1	43	1.08
5334652--5334699	23	2.1	23	100	0	96	50	12	12	25	1.75
5336165--5336197	2	16.5	2	100	0	66	51	0	0	48	1.00
5337275--5337323	25	1.9	26	83	4	64	36	4	8	51	1.51
5339291--5339317	2	13.5	2	100	0	54	51	0	0	48	1.00
5345687--5345712	6	4.3	6	100	0	52	30	0	0	69	0.89

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