genome.fa.s72.2.7.7.80.10.50.1000.35.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  35  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)
5036132--5036219	31	2.9	30	78	11	106	55	2	2	39	1.25
5036137--5036252	30	3.9	30	75	8	103	56	2	1	39	1.23
5036132--5036279	61	2.5	61	79	11	166	56	2	2	39	1.25
5036596--5036642	22	2.0	24	88	8	71	51	0	0	48	1.00
5037322--5037377	16	3.1	18	82	12	62	44	0	0	55	0.99
5039841--5039883	20	2.2	19	87	4	59	51	0	0	48	1.00
5048086--5048123	20	1.9	20	94	0	67	31	0	0	68	0.90
5048084--5048125	19	2.3	18	91	4	66	30	0	0	69	0.89
5064850--5064874	12	2.1	12	100	0	50	40	16	36	8	1.77
5064869--5064898	15	2.0	15	93	0	51	36	6	26	30	1.82
5066143--5066200	2	29.0	2	85	0	80	43	0	6	50	1.29
5073827--5073929	48	2.1	48	83	1	125	31	9	7	51	1.63
5074063--5074093	2	16.0	2	93	6	55	51	0	0	48	1.00
5077466--5077494	2	14.5	2	100	0	58	48	0	0	51	1.00
5077991--5078041	11	4.8	10	81	9	57	45	0	1	52	1.12
5078739--5078799	2	32.0	2	72	21	51	49	6	0	44	1.28
5080964--5080990	3	9.0	3	100	0	54	0	33	0	66	0.92
5084892--5084962	33	2.4	27	72	25	72	42	4	1	52	1.29
5088746--5088786	16	2.6	17	85	14	61	31	0	0	68	0.90
5089384--5089441	28	2.1	28	81	12	66	44	1	0	53	1.10
5089399--5089441	14	3.1	14	79	0	50	46	0	0	53	1.00
5090658--5090698	21	1.9	22	85	5	57	4	9	4	80	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5090924--5090953	2	15.0	2	100	0	60	50	0	0	50	1.00
5091402--5091450	18	2.9	17	77	19	57	57	2	4	36	1.30
5096062--5096090	2	14.5	2	100	0	58	51	0	0	48	1.00
5096143--5096191	6	8.0	6	81	4	62	63	0	0	36	0.95
5096131--5096189	12	5.2	12	74	8	52	57	0	0	42	0.98
5101577--5101601	10	2.5	10	100	0	50	28	0	0	72	0.86
5101630--5101695	34	1.9	35	82	14	84	42	0	3	54	1.15
5101987--5102035	21	2.2	23	78	7	57	44	0	2	53	1.12
5102337--5102387	18	3.0	17	77	16	52	37	7	0	54	1.29
5102943--5103002	19	2.8	22	73	17	63	58	0	0	41	0.98
5104802--5104831	3	10.0	3	100	0	60	0	0	33	66	0.92
5106935--5107009	8	8.6	9	74	14	52	41	1	0	57	1.07
5106997--5107066	28	2.4	29	75	15	74	37	1	1	60	1.15
5107095--5107136	17	2.5	16	84	7	57	57	0	0	42	0.99
5107851--5108029	63	3.0	61	90	8	275	51	6	0	41	1.28
5108608--5108635	2	14.0	2	100	0	56	50	0	0	50	1.00
5108818--5108859	3	13.3	3	90	9	66	64	0	0	35	0.94
5109116--5109147	2	16.0	2	93	0	55	46	0	0	53	1.00
5112311--5112384	20	3.7	20	75	17	64	35	0	1	63	1.03
5112338--5112366	11	2.7	11	94	5	51	24	0	0	75	0.80
5112334--5112384	17	3.3	17	67	32	51	29	0	0	70	0.87
5112333--5112384	12	4.3	12	85	7	52	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5116890--5117015	64	2.0	64	95	0	225	41	21	13	23	1.89
5118769--5118806	7	6.2	6	88	11	51	47	0	0	52	1.00
5118798--5118839	23	1.9	21	90	9	66	52	0	2	45	1.13
5118938--5118978	11	3.6	12	77	9	50	51	0	0	48	1.00
5123613--5123684	28	2.6	28	72	10	67	55	0	1	43	1.08
5123608--5123681	11	7.3	11	71	18	54	55	0	1	43	1.08
5124146--5124189	18	2.4	19	78	17	56	36	0	0	63	0.95
5124497--5124564	2	33.5	2	86	2	82	51	5	1	41	1.35
5135048--5135129	28	2.9	28	77	12	78	34	3	1	60	1.22
5135264--5135305	23	1.9	22	85	9	59	30	2	4	61	1.29
5137558--5137591	14	2.3	15	90	5	52	2	17	0	79	0.86
5145732--5145761	14	2.2	13	94	5	51	70	0	0	30	0.88
5146873--5146898	2	13.0	2	100	0	52	50	0	0	50	1.00
5147162--5147203	21	2.0	21	85	0	57	42	0	2	54	1.13
5147694--5147769	27	2.9	26	80	18	86	47	1	0	51	1.09
5148223--5148251	2	14.5	2	100	0	58	51	0	0	48	1.00
5148197--5148305	54	2.0	54	96	0	200	43	12	1	42	1.53
5148277--5148310	2	17.0	2	100	0	68	50	0	0	50	1.00
5151774--5151820	18	2.6	18	80	12	60	61	0	0	38	0.96
5153629--5153653	12	2.1	12	100	0	50	52	40	0	8	1.31
5154220--5154255	2	18.0	2	100	0	72	50	0	0	50	1.00
5161427--5161856	220	2.0	219	88	1	646	33	19	14	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5164182--5164208	2	13.5	2	100	0	54	0	48	0	51	1.00
5164623--5164664	22	1.9	22	85	0	57	61	4	2	30	1.29
5164674--5164715	18	2.5	17	81	11	50	38	0	0	61	0.96
5164678--5164737	26	2.3	26	91	5	95	41	0	0	58	0.98
5164663--5164745	45	1.9	42	82	7	103	42	0	1	56	1.07
5165449--5165473	13	1.9	13	100	0	50	76	0	0	24	0.80
5165495--5165612	11	11.0	11	68	15	52	50	0	1	48	1.11
5167847--5167903	16	3.6	16	75	17	64	59	0	0	40	0.97
5169034--5169073	19	2.0	21	85	9	57	12	5	7	75	1.18
5169611--5169641	3	10.3	3	100	0	62	67	0	0	32	0.91
5173927--5173970	22	2.0	21	82	4	52	2	22	9	65	1.32
5174095--5174128	15	2.4	14	85	9	50	70	0	0	29	0.87
5174370--5174394	13	1.9	13	100	0	50	36	0	8	56	1.29
5174522--5174604	27	2.9	29	77	14	100	46	0	0	53	1.00
5174539--5174582	13	3.4	13	77	0	52	50	0	0	50	1.00
5174559--5174602	19	2.3	19	80	11	54	45	0	0	54	0.99
5176859--5176919	26	2.3	26	94	0	104	24	8	22	44	1.80
5178876--5178929	23	2.3	23	84	6	65	51	1	1	44	1.22
5179790--5179825	2	18.0	2	94	0	63	47	0	2	50	1.15
5185046--5185073	7	4.0	7	100	0	56	57	0	0	42	0.99
5185205--5185241	11	2.9	13	80	19	51	64	0	0	35	0.94
5185254--5185286	14	2.5	13	95	5	57	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5185208--5185305	51	1.9	51	83	8	128	50	0	0	50	1.00
5190155--5190217	22	2.7	24	78	14	78	50	1	0	47	1.10
5190263--5190322	22	2.9	19	72	15	57	51	0	0	48	1.00
5190239--5190314	22	3.4	21	74	13	62	53	0	0	46	1.00
5190270--5190300	16	1.9	16	93	0	53	51	0	0	48	1.00
5192262--5192419	85	1.9	85	94	0	280	39	22	13	24	1.90
5193390--5193502	15	7.3	15	78	10	95	46	0	0	53	1.00
5193390--5193499	47	2.3	47	85	0	166	47	0	0	52	1.00
5193404--5193476	15	4.5	17	84	10	100	50	0	0	49	1.00
5193390--5193479	16	5.7	16	81	11	105	48	0	0	51	1.00
5193387--5193571	32	6.0	29	68	15	104	47	0	2	49	1.19
5193546--5193588	20	2.2	20	86	0	59	51	0	4	44	1.22
5194092--5194126	4	8.2	4	90	9	52	45	0	2	51	1.16
5194092--5194141	9	6.0	9	75	17	54	48	0	2	50	1.12
5194092--5194126	17	2.1	17	94	0	61	45	0	2	51	1.16
5194092--5194126	13	2.8	12	91	8	52	45	0	2	51	1.16
5194084--5194159	28	2.8	27	75	17	77	46	0	1	52	1.08
5194189--5194229	20	2.1	19	86	4	55	70	0	2	26	0.99
5198439--5198671	50	4.6	50	89	2	342	30	19	19	30	1.97
5203083--5203301	50	4.4	50	86	0	294	30	16	19	33	1.94
5205302--5205364	2	31.5	2	86	0	81	50	6	0	42	1.27
5210611--5210664	19	3.0	17	78	8	54	55	0	3	40	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5212235--5212267	17	1.9	17	93	0	57	72	0	0	27	0.85
5212244--5212302	27	2.2	26	85	11	84	62	0	1	35	1.05
5212237--5212323	46	1.9	45	81	9	106	60	0	1	37	1.04
5212436--5212472	17	2.2	16	90	4	56	43	0	2	54	1.14
5213367--5213445	34	2.5	31	75	15	81	50	1	0	48	1.08
5213728--5213760	2	16.5	2	100	0	66	48	0	0	51	1.00
5215902--5215953	25	2.0	26	82	10	63	50	0	0	50	1.00
5216769--5216806	17	2.2	17	90	0	58	44	23	0	31	1.54
5218051--5218123	5	14.8	5	72	16	55	64	0	0	35	0.94
5218071--5218123	16	3.1	17	81	13	63	62	0	0	37	0.96

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