genome.fa.s11.2.7.7.80.10.50.1000.29.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   

This is table  29  of  29  ( 3461 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)
5029733--5029950	67	3.2	67	86	1	301	40	27	7	24	1.81
5031255--5031280	7	3.7	7	100	0	52	88	0	0	11	0.52
5034520--5034572	22	2.4	21	81	15	54	41	3	1	52	1.30
5034563--5034622	19	3.0	20	77	18	70	50	0	0	50	1.00
5034563--5034639	22	3.7	21	78	14	79	53	0	1	45	1.08
5041376--5041405	2	15.0	2	100	0	60	50	0	0	50	1.00
5043391--5043426	16	2.3	16	90	4	56	19	2	2	75	1.06
5043645--5043735	33	2.6	34	80	18	100	46	0	1	52	1.07
5043616--5043710	50	1.9	50	82	8	122	44	1	0	54	1.07
5043933--5043968	16	2.3	15	95	4	63	8	11	0	80	0.90
5044208--5044422	31	6.3	32	76	18	204	42	2	0	54	1.16
5044242--5044449	71	3.0	70	87	9	266	39	2	0	56	1.18
5044208--5044443	34	6.9	33	75	19	193	41	2	0	55	1.17
5044196--5044443	36	7.1	34	74	15	204	41	2	0	55	1.16
5046282--5046511	36	6.7	35	75	15	219	43	2	0	54	1.12
5046312--5046363	15	3.5	15	76	7	61	44	1	0	53	1.11
5046306--5046354	15	3.4	14	75	8	53	51	2	0	46	1.12
5046281--5046511	103	2.2	104	84	6	292	42	2	0	54	1.12
5046337--5046537	70	2.8	70	86	9	246	42	2	0	54	1.15
5046533--5046567	13	2.6	14	86	9	54	37	0	0	62	0.95
5050298--5050356	28	2.1	28	81	6	66	57	5	3	33	1.37
5052186--5052260	31	2.5	31	86	6	109	42	2	13	41	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5052391--5052458	23	3.0	23	72	10	68	58	0	0	41	0.98
5052395--5052440	20	2.3	21	85	7	60	60	0	0	39	0.97
5053146--5053211	25	2.8	24	82	11	73	48	0	4	46	1.22
5053151--5053221	24	2.9	25	83	10	76	46	0	4	49	1.21
5053151--5053221	25	2.9	24	81	10	72	46	0	4	49	1.21
5053972--5053997	6	4.3	6	100	0	52	15	19	30	34	1.93
5054292--5054337	23	1.9	25	82	8	60	52	6	0	41	1.27
5055628--5055676	23	2.1	23	81	11	55	65	2	0	32	1.04
5056802--5056845	20	2.2	20	83	4	52	34	18	4	43	1.70
5057678--5057737	19	3.2	20	74	9	54	63	1	1	33	1.14
5058002--5058026	3	8.3	3	100	0	50	68	0	0	32	0.90
5058348--5058402	2	27.5	2	100	0	110	49	0	0	50	1.00
5058544--5058575	2	16.0	2	100	0	64	50	0	0	50	1.00
5061797--5061826	2	15.0	2	100	0	60	50	0	0	50	1.00
5062378--5062415	3	12.7	3	100	0	76	65	0	34	0	0.93
5067371--5067634	144	1.8	142	84	1	357	43	8	9	38	1.68
5068564--5068629	32	2.1	32	82	5	80	50	0	3	46	1.16
5068601--5068642	19	2.2	20	83	12	52	40	0	0	59	0.97
5068589--5068653	20	3.5	19	73	14	55	46	0	0	53	1.00
5068641--5068700	29	2.1	29	87	6	86	60	1	0	38	1.07
5068655--5068700	19	2.5	18	89	6	74	63	0	0	36	0.95
5071402--5071461	19	3.0	20	83	11	77	80	0	20	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5072279--5072331	14	3.5	14	72	18	52	43	1	0	54	1.11
5072375--5072428	24	2.3	24	81	15	60	31	3	3	61	1.31
5082163--5082197	3	11.7	3	100	0	70	34	0	0	65	0.93
5085002--5085102	50	2.0	50	100	0	202	27	21	14	35	1.93
5087981--5088008	2	14.0	2	100	0	56	50	0	50	0	1.00
5088611--5088664	20	2.7	20	76	0	54	40	1	1	55	1.21
5088629--5088713	20	4.2	19	73	11	71	36	1	2	60	1.18
5088789--5088904	57	2.0	57	84	0	151	24	7	5	62	1.42
5092140--5092184	24	2.0	22	86	8	63	40	0	4	55	1.20
5092283--5092329	22	2.1	22	100	0	94	27	4	12	55	1.56
5105892--5105919	14	2.0	14	100	0	56	35	7	14	42	1.73
5106091--5106130	12	3.3	12	85	0	53	40	0	7	52	1.30
5107790--5107821	2	16.0	2	100	0	64	0	50	0	50	1.00
5109457--5109602	21	6.9	21	69	18	63	50	5	4	40	1.45
5109717--5109807	21	4.4	21	78	13	91	52	12	1	34	1.46
5123449--5123475	2	13.5	2	100	0	54	51	0	0	48	1.00
5124336--5124373	14	2.5	15	83	8	51	44	5	0	50	1.24
5136776--5136823	21	2.4	20	83	10	62	64	2	0	33	1.05
5142045--5142094	2	25.5	2	91	4	84	52	2	0	46	1.12
5145017--5145047	2	15.5	2	100	0	62	51	0	0	48	1.00
5145047--5145072	2	13.0	2	100	0	52	50	50	0	0	1.00
5145377--5145408	2	17.0	2	87	12	50	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5145377--5145408	15	2.1	15	100	0	64	46	0	0	53	1.00
5145377--5145402	13	2.0	13	100	0	52	46	0	0	53	1.00
5147437--5147485	2	25.0	2	88	12	75	51	0	46	2	1.12
5147911--5147935	2	12.5	2	100	0	50	0	52	0	48	1.00
5148684--5148719	18	2.1	17	89	5	54	50	0	5	44	1.25
5152453--5152492	2	20.0	2	100	0	80	0	50	0	50	1.00
5153108--5153137	13	2.3	13	94	0	51	16	0	3	80	0.85
5153679--5153717	12	3.2	12	85	0	51	30	33	28	7	1.85
5156600--5156638	2	20.5	2	89	10	64	53	0	0	46	1.00
5156598--5156643	14	3.4	14	77	11	51	58	0	0	41	0.98
5159827--5159876	25	2.0	25	100	0	100	28	12	12	48	1.76
5163737--5163841	51	2.1	51	98	0	201	33	15	19	32	1.92
5165879--5165934	22	2.5	23	80	8	71	42	0	1	55	1.10
5165929--5165978	18	3.4	14	78	21	57	42	0	0	58	0.98
5165919--5165967	18	2.4	22	77	19	61	40	0	0	59	0.98
5165862--5166005	74	2.0	72	82	8	175	40	0	0	58	1.03
5165929--5165995	29	2.2	31	86	7	93	41	0	0	58	0.98
5165972--5166051	22	3.9	20	74	11	63	33	0	0	66	0.92
5167030--5167074	23	2.0	22	86	4	63	40	4	0	55	1.20
5167393--5167432	3	13.3	3	100	0	80	32	0	0	67	0.91
5168454--5168480	2	13.5	2	100	0	54	51	0	0	48	1.00
5174287--5174313	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5174315--5174345	2	15.5	2	100	0	62	51	0	48	0	1.00
5182416--5182440	1	25.0	1	100	0	50	0	0	100	0	0.00
5182664--5182703	20	2.0	21	85	5	55	50	15	27	7	1.70
5184116--5184210	15	6.1	16	69	25	51	42	3	3	51	1.33
5190642--5190752	42	2.6	42	91	2	170	14	22	30	32	1.94
5190831--5190897	6	11.2	6	81	0	80	32	26	22	17	1.96
5191942--5191978	2	18.5	2	94	0	65	48	0	0	51	1.00
5194519--5194586	22	3.1	22	82	4	75	67	1	0	30	0.99
5194508--5194546	18	2.1	19	85	9	53	61	0	0	38	0.96
5204226--5204295	24	2.9	24	71	12	63	55	0	2	41	1.14
5204849--5204912	18	3.6	18	76	16	62	34	0	0	65	0.93
5217682--5217755	36	2.1	36	94	0	130	59	5	9	25	1.50
5218205--5218231	3	9.0	3	100	0	54	0	33	0	66	0.92

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

The End!