genome.fa.s72.2.7.7.80.10.50.1000.37.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  37  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)
5347823--5347878	11	5.1	11	77	14	62	66	0	1	32	1.03
5347848--5347882	17	2.1	16	89	5	52	77	0	0	22	0.78
5347848--5347898	18	2.9	17	80	13	50	70	0	0	29	0.87
5347848--5347898	17	2.9	17	82	8	50	70	0	0	29	0.87
5347881--5347933	15	3.3	15	73	21	54	52	1	0	45	1.11
5347874--5347931	17	3.5	17	68	25	52	58	1	0	39	1.08
5347947--5348004	22	2.6	22	77	17	59	51	1	0	46	1.11
5355478--5355531	27	2.0	27	96	0	99	11	24	25	38	1.88
5356189--5356227	20	1.9	21	89	5	62	48	0	0	51	1.00
5356185--5356232	25	1.9	25	83	8	62	50	0	0	50	1.00
5359168--5359205	2	19.0	2	100	0	76	50	0	0	50	1.00
5359986--5360015	3	10.0	3	100	0	60	66	0	0	33	0.92
5360817--5360859	2	21.5	2	90	0	68	44	0	4	51	1.22
5362383--5362412	2	15.0	2	100	0	60	50	0	0	50	1.00
5362869--5362908	2	20.0	2	100	0	80	50	0	0	50	1.00
5363177--5363246	15	4.6	15	77	10	79	51	0	0	48	1.00
5369168--5369200	15	2.1	16	88	5	50	90	3	6	0	0.52
5375670--5375761	21	4.4	21	91	0	139	50	13	27	9	1.72
5387592--5387618	14	1.9	14	100	0	54	74	3	0	22	0.98
5392120--5392167	26	2.0	25	84	12	64	35	12	10	41	1.77
5393464--5393502	18	2.2	17	86	9	51	43	0	0	56	0.99
5393588--5393640	14	3.8	14	85	7	72	43	0	3	52	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5393626--5393668	19	2.3	18	88	8	59	48	0	4	46	1.22
5393640--5393681	19	2.2	19	83	8	50	50	2	4	42	1.36
5393707--5393745	20	2.0	20	85	9	55	51	0	0	48	1.00
5393725--5393785	17	3.7	17	72	24	58	40	1	0	57	1.08
5393829--5393912	38	2.2	38	81	10	91	46	3	2	47	1.32
5393880--5393923	15	3.0	15	76	3	54	52	2	0	45	1.13
5395721--5395750	2	15.0	2	100	0	60	50	0	0	50	1.00
5396460--5396489	3	10.0	3	100	0	60	66	0	0	33	0.92
5397857--5397897	2	20.5	2	94	0	73	53	0	46	0	1.00
5398415--5398439	12	2.1	12	100	0	50	20	16	16	48	1.82
5402119--5402169	7	7.3	7	95	0	84	17	43	11	27	1.84
5411348--5411426	28	2.8	27	81	11	88	39	3	1	55	1.26
5418342--5418370	8	3.8	8	90	9	51	89	0	0	10	0.48
5418342--5418371	15	2.0	15	100	0	60	86	0	0	13	0.57
5424877--5424939	11	5.2	12	75	21	53	44	1	1	52	1.20
5425632--5425668	19	1.9	19	88	0	56	51	8	10	29	1.65
5431058--5431083	12	2.2	12	100	0	52	15	23	46	15	1.83
5438783--5438808	4	6.5	4	100	0	52	23	0	0	76	0.78
5439889--5439931	22	2.0	22	85	0	59	34	0	4	60	1.17
5439928--5439991	30	2.1	30	86	11	87	57	0	7	34	1.27
5440135--5440266	10	12.7	11	68	20	79	60	0	0	39	0.97
5440135--5440269	19	6.8	20	72	15	93	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5440136--5440253	25	4.6	25	69	18	91	58	0	0	41	0.98
5440175--5440257	31	2.7	31	79	15	93	56	0	0	43	0.99
5440188--5440262	23	3.3	24	76	10	77	57	0	0	42	0.98
5447964--5448028	25	2.6	24	80	7	76	46	0	1	52	1.10
5448014--5448087	29	2.6	29	79	16	91	40	0	0	59	0.97
5448028--5448209	9	20.4	9	65	22	57	39	1	2	57	1.18
5448035--5448110	14	5.2	15	75	15	70	39	0	0	60	0.97
5448028--5448105	20	3.7	20	71	18	68	39	0	0	60	0.97
5449410--5449448	21	1.9	21	89	5	62	48	2	0	48	1.15
5449662--5449693	2	16.0	2	100	0	64	0	50	0	50	1.00
5451637--5451699	30	2.1	30	90	0	99	36	15	11	36	1.84
5454015--5454051	3	12.3	3	100	0	74	32	0	0	67	0.91
5466279--5466332	23	2.3	23	87	0	72	38	18	5	37	1.74
5472939--5472966	2	14.0	2	100	0	56	50	0	0	50	1.00
5475390--5475482	16	5.8	16	72	5	62	26	32	18	22	1.97
5475373--5475445	32	2.3	32	85	4	94	21	32	20	24	1.97
5476187--5476259	32	2.3	32	83	4	85	21	31	20	26	1.98
5475228--5476860	814	2.0	814	99	0	3230	27	23	17	32	1.96
5478162--5478222	29	2.1	30	84	3	79	34	1	0	63	1.04
5481794--5481820	2	13.5	2	100	0	54	51	0	0	48	1.00
5481820--5481850	2	15.5	2	100	0	62	51	0	48	0	1.00
5488406--5488444	2	19.5	2	89	0	60	51	2	46	0	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5491191--5491257	30	2.2	30	94	0	116	14	38	19	26	1.91
5493548--5493601	20	2.8	20	83	5	67	38	0	1	59	1.08
5493603--5493650	25	1.9	26	83	8	64	60	4	0	35	1.16
5493780--5493816	17	2.1	18	90	5	58	40	0	0	59	0.97
5493853--5493890	20	1.9	20	94	0	67	50	0	0	50	1.00
5493841--5493891	25	2.0	26	84	3	68	49	0	0	50	1.00
5494299--5494339	22	1.9	21	85	5	55	26	43	7	21	1.79
5520678--5520716	19	2.1	19	85	0	51	48	17	10	23	1.78
5524183--5525086	463	2.0	462	99	0	1790	29	26	12	31	1.93
5533333--5533373	2	20.5	2	100	0	82	51	0	0	48	1.00
5553170--5553205	2	18.0	2	94	0	63	52	0	0	47	1.00
5556690--5556728	8	5.0	8	84	6	53	84	0	15	0	0.62
5556692--5556728	12	3.2	12	88	7	58	83	0	16	0	0.64
5569360--5569390	15	2.1	15	93	0	53	12	16	19	51	1.76
5573788--5573837	24	2.1	24	85	7	66	32	0	2	66	1.03
5573788--5573870	25	3.3	26	71	17	68	31	0	3	65	1.10
5573796--5573873	26	3.0	27	72	22	78	30	0	2	66	1.05
5574065--5574109	3	15.3	3	95	4	83	68	0	0	31	0.89
5574518--5574552	12	3.2	11	88	11	54	0	17	0	82	0.66
5574518--5574552	17	2.0	18	94	5	63	0	17	0	82	0.66
5576070--5576094	2	12.5	2	100	0	50	48	0	0	52	1.00
5580833--5580889	6	9.2	6	79	7	60	56	0	1	42	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5580841--5580895	26	2.2	25	90	3	83	58	0	1	40	1.09
5588886--5588921	2	18.0	2	100	0	72	50	0	50	0	1.00
5589973--5590014	2	21.0	2	100	0	84	50	0	50	0	1.00
5590083--5590124	2	21.5	2	95	4	77	50	0	0	50	1.00
5591993--5592033	12	3.2	12	83	10	55	68	0	0	31	0.90
5595774--5595824	19	2.6	21	82	14	65	49	0	3	47	1.20
5605216--5605304	13	5.9	13	72	27	70	34	13	17	33	1.89
5605196--5605325	32	4.0	32	97	1	242	34	12	17	35	1.87
5605194--5605323	19	7.8	18	70	29	110	33	12	17	36	1.87
5605344--5605494	52	2.9	52	89	1	212	36	17	15	30	1.91
5605560--5605609	21	2.4	21	96	0	91	40	20	10	30	1.85
5609029--5609061	11	3.1	11	86	4	50	39	0	0	60	0.97
5609463--5609509	18	2.5	19	80	16	53	36	8	4	51	1.52
5610000--5610154	5	30.6	5	68	15	61	60	0	1	37	1.10
5610004--5610156	17	10.1	15	66	18	59	61	0	1	36	1.09
5610113--5610155	17	2.5	17	88	7	61	69	0	0	30	0.88
5610112--5610154	11	3.8	11	77	17	52	67	0	0	32	0.91
5610061--5610168	25	4.2	26	73	15	91	60	0	0	37	1.10
5614705--5614740	2	17.5	2	88	5	54	50	0	47	2	1.15
5622860--5623036	90	2.0	90	91	0	291	42	6	1	49	1.36
5624359--5624388	15	2.1	14	93	6	51	53	0	6	40	1.27
5635157--5635193	19	2.0	18	94	5	65	0	18	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5637194--5637239	24	1.9	24	81	0	56	56	0	0	43	0.99
5643031--5643065	16	2.3	15	95	5	61	37	0	0	62	0.95
5643126--5643162	18	2.0	19	89	5	58	27	0	0	72	0.84
5647731--5647797	14	4.5	15	71	21	52	56	0	0	43	0.99
5647732--5647798	28	2.3	29	82	7	82	58	0	0	41	0.98
5647821--5647854	17	2.0	17	88	0	50	55	0	8	35	1.31
5648228--5648279	12	4.5	12	81	15	65	69	1	3	25	1.16
5648228--5648279	23	2.3	23	80	16	63	69	1	3	25	1.16
5648762--5648799	19	2.0	20	89	5	60	73	5	0	21	1.02
5648872--5648923	16	3.4	15	76	10	52	3	19	0	76	0.93

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