genome.fa.s71.2.7.7.80.10.50.1000.30.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

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   

This is table  30  of  33  ( 3929 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)
5077832--5077883	26	2.1	24	82	10	61	46	5	1	46	1.38
5078288--5078426	21	6.5	21	63	23	58	44	1	0	53	1.14
5078283--5078359	17	4.4	18	70	27	60	49	0	0	50	1.00
5078594--5078630	13	2.7	14	84	16	51	35	0	2	62	1.10
5078575--5078664	27	3.4	27	70	16	71	35	0	2	62	1.08
5078694--5078731	17	2.3	16	83	16	51	50	2	0	47	1.15
5079259--5079295	17	2.2	17	90	4	58	45	0	2	51	1.15
5079373--5079419	24	2.0	24	83	8	60	46	0	4	48	1.21
5080560--5080699	74	1.9	74	87	0	208	26	18	26	28	1.98
5081095--5081601	78	6.5	77	80	1	447	26	16	30	27	1.97
5082919--5083094	75	2.3	75	75	3	174	26	17	25	30	1.97
5083249--5083310	24	2.7	23	75	7	63	43	0	6	50	1.28
5083621--5083676	30	1.9	28	82	13	69	42	0	3	53	1.18
5085411--5085439	2	14.5	2	100	0	58	48	0	0	51	1.00
5086065--5086118	17	3.2	17	76	12	58	44	3	1	50	1.30
5087639--5087699	20	3.0	20	75	4	59	47	0	1	50	1.10
5094525--5094551	13	2.1	13	100	0	54	14	7	29	48	1.71
5095658--5095686	2	14.5	2	100	0	58	48	0	0	51	1.00
5097041--5097084	23	1.9	23	85	0	61	45	0	4	50	1.22
5097617--5097666	18	2.7	19	74	17	52	32	2	0	66	1.03
5097822--5097861	11	3.6	11	86	0	62	32	2	0	65	1.06
5097826--5097875	22	2.4	22	86	6	68	30	2	0	68	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5097998--5098044	23	2.1	22	84	4	58	23	2	4	70	1.16
5099023--5099058	17	2.1	18	89	5	56	55	0	0	44	0.99
5099050--5099087	18	2.1	19	85	14	53	50	2	0	47	1.15
5099070--5099120	21	2.4	21	81	15	61	49	0	0	50	1.00
5099074--5099133	26	2.3	27	77	11	63	50	0	1	48	1.11
5099389--5099428	6	6.5	6	91	2	62	32	0	0	67	0.91
5099388--5099435	6	7.6	7	86	11	52	31	0	0	68	0.90
5100076--5100114	20	1.9	21	94	5	71	35	10	10	43	1.73
5100678--5100717	18	2.1	20	86	9	57	40	2	0	57	1.12
5104205--5104239	2	17.5	2	87	0	52	42	0	0	57	0.99
5104203--5104240	12	3.2	12	88	0	58	39	0	0	60	0.97
5105280--5105311	2	16.0	2	93	0	55	0	46	0	53	1.00
5111501--5111539	2	19.5	2	94	0	69	48	0	2	48	1.15
5112263--5112299	2	18.5	2	100	0	74	51	0	0	48	1.00
5112650--5112676	2	13.5	2	100	0	54	48	0	0	51	1.00
5114099--5114123	2	12.5	2	100	0	50	48	0	0	52	1.00
5115601--5115648	23	2.1	23	96	0	87	52	6	0	41	1.27
5115679--5115728	19	2.5	20	87	6	66	74	6	4	16	1.17
5115770--5115842	22	3.2	22	77	20	78	47	0	1	50	1.09
5116264--5116298	2	17.5	2	100	0	70	48	0	0	51	1.00
5116958--5117014	25	2.5	22	79	17	71	35	1	0	63	1.05
5116962--5117010	25	2.0	25	91	0	80	36	2	0	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5118394--5118450	30	1.9	30	96	0	105	40	1	14	43	1.55
5125303--5125342	2	20.0	2	94	0	71	50	2	0	47	1.14
5125420--5125449	2	15.0	2	92	0	51	46	0	3	50	1.18
5125946--5126028	18	4.8	18	69	21	52	44	0	40	14	1.45
5131414--5131458	10	4.7	10	83	10	58	46	0	35	17	1.49
5131414--5131462	8	5.6	9	77	20	50	44	0	38	16	1.48
5131414--5131464	18	2.8	18	85	5	68	45	0	39	15	1.47
5131479--5131517	18	2.2	18	86	4	53	56	0	30	12	1.37
5132410--5132479	30	2.4	30	85	7	90	41	0	0	58	0.98
5132538--5132594	19	3.2	18	71	9	55	52	0	1	45	1.11
5132578--5132629	23	2.2	25	86	6	72	44	0	1	53	1.11
5132605--5132678	17	4.6	17	66	16	50	44	1	0	54	1.08
5138615--5138643	14	2.0	15	93	6	51	89	6	3	0	0.57
5138616--5138647	16	2.0	16	93	0	55	90	6	3	0	0.53
5139155--5139407	107	2.4	107	98	0	488	21	14	7	56	1.64
5141361--5141391	2	16.0	2	93	6	55	0	48	0	51	1.00
5141391--5141416	2	13.0	2	100	0	52	50	0	0	50	1.00
5142351--5142380	3	10.0	3	92	0	51	63	0	3	33	1.11
5150238--5150276	11	3.4	11	80	13	51	64	0	0	35	0.94
5151100--5151171	16	4.5	16	80	0	72	41	1	2	54	1.23
5151104--5151171	32	2.1	32	83	0	82	42	1	2	52	1.25
5154769--5154815	24	2.0	24	83	4	60	29	6	6	57	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5160818--5160890	24	3.0	24	77	0	83	28	17	34	19	1.95
5162324--5162354	2	15.5	2	93	0	53	51	3	0	45	1.17
5165449--5165478	12	2.5	12	94	0	51	40	16	26	16	1.90
5166861--5166886	2	13.0	2	100	0	52	50	0	0	50	1.00
5171510--5171564	17	3.4	17	70	25	55	40	1	3	54	1.28
5173050--5173074	6	4.2	6	100	0	50	52	0	16	32	1.44
5177681--5177709	2	14.5	2	100	0	58	48	0	0	51	1.00
5178932--5178960	2	14.5	2	100	0	58	48	0	0	51	1.00
5183573--5183604	2	16.0	2	100	0	64	50	0	0	50	1.00
5188171--5188203	3	11.0	3	93	0	57	66	3	0	30	1.06
5188171--5188209	9	4.3	9	93	0	51	64	5	2	28	1.28
5188280--5188318	18	2.0	20	85	9	55	48	2	0	48	1.15
5189587--5189746	42	3.8	41	80	8	135	25	11	33	28	1.91
5189685--5189764	42	1.9	42	85	10	110	23	15	31	30	1.95
5190741--5190782	2	21.0	2	95	0	75	50	2	0	47	1.14
5192436--5192470	3	11.7	3	93	0	61	62	2	0	34	1.10
5192632--5193002	137	2.8	132	79	6	390	38	11	27	23	1.89
5193527--5193574	19	2.3	22	86	13	66	70	0	0	29	0.87
5193526--5193583	23	2.3	24	82	14	73	72	0	0	27	0.85
5201889--5201960	21	3.2	22	82	13	85	30	2	1	65	1.15
5202523--5202577	27	2.1	26	83	10	67	34	3	1	60	1.25
5202560--5202634	15	5.3	14	71	7	53	41	1	0	57	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5206563--5206608	22	2.1	22	84	8	58	63	0	0	36	0.95
5209194--5209227	2	17.5	2	93	6	61	47	0	0	52	1.00
5212803--5212841	2	19.5	2	100	0	78	48	0	0	51	1.00
5212983--5213025	13	3.2	14	83	6	54	46	0	0	53	1.00
5213807--5213837	2	15.5	2	100	0	62	51	48	0	0	1.00
5216612--5216668	2	28.5	2	96	0	60	10	0	38	50	1.37
5226085--5226118	6	5.8	6	96	3	61	0	11	0	88	0.52
5226462--5226494	3	11.0	3	100	0	66	66	0	0	33	0.92
5228359--5228390	16	2.0	16	93	0	55	40	0	3	56	1.15
5231461--5231507	16	2.9	16	79	17	53	59	0	0	40	0.97
5231455--5231510	23	2.4	24	80	16	64	58	0	0	41	0.98
5231461--5231510	25	2.0	25	85	11	68	60	0	0	40	0.97
5237040--5237110	33	2.2	31	80	11	81	43	0	2	53	1.15
5237057--5237112	10	5.3	10	75	12	58	42	0	0	57	0.99
5237203--5237293	30	3.1	29	81	10	103	40	1	1	57	1.13
5237174--5237293	30	4.1	30	76	13	99	40	1	1	55	1.19
5237710--5238039	165	2.0	167	88	4	495	17	23	15	43	1.87
5238914--5238942	2	14.5	2	100	0	58	0	51	0	48	1.00
5239629--5239669	2	20.5	2	94	0	73	46	0	2	51	1.14
5242972--5243025	2	27.0	2	92	0	90	46	3	0	50	1.19
5243774--5243805	2	16.0	2	100	0	64	0	0	50	50	1.00
5244919--5245108	89	2.1	90	96	0	346	22	12	28	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5245642--5246444	399	2.0	400	97	0	1509	23	14	20	41	1.89
5256666--5256702	18	2.0	19	85	15	51	54	5	0	40	1.24
5256681--5256725	23	2.0	21	83	8	54	60	6	0	33	1.23
5256762--5256836	21	3.7	20	67	16	55	48	4	8	40	1.51
5256823--5256896	11	6.9	11	76	6	71	51	4	2	41	1.35
5257296--5257471	90	2.0	90	88	1	264	23	14	21	39	1.91
5258473--5258502	11	2.7	11	94	0	51	0	3	6	90	0.56
5258473--5258506	15	2.2	16	89	5	52	0	2	8	88	0.62
5258707--5258746	2	20.0	2	100	0	80	0	50	0	50	1.00
5263452--5263500	22	2.1	24	82	14	59	10	18	10	61	1.55

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