genome.fa.s71.2.7.7.80.10.50.1000.32.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  32  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)
5492636--5492728	18	4.6	21	67	20	56	56	0	1	41	1.06
5492736--5492809	29	2.5	31	79	14	84	68	4	0	27	1.07
5493170--5493209	2	20.0	2	100	0	80	50	0	0	50	1.00
5494313--5494365	22	2.5	22	82	11	58	52	3	1	41	1.30
5496262--5496290	2	14.5	2	100	0	58	51	0	48	0	1.00
5499278--5499303	2	13.0	2	100	0	52	50	0	0	50	1.00
5500123--5500171	13	3.9	13	75	20	50	53	0	0	46	1.00
5500506--5500530	2	12.5	2	100	0	50	48	0	0	52	1.00
5500652--5500677	2	13.0	2	100	0	52	50	0	0	50	1.00
5501938--5501988	3	17.0	3	92	8	86	66	0	33	0	0.92
5503123--5503181	19	3.2	19	79	13	77	49	0	1	49	1.11
5503125--5503181	18	3.1	18	73	14	62	49	0	1	49	1.11
5503123--5503195	19	3.8	20	78	12	64	45	0	2	52	1.15
5503731--5503770	20	2.0	20	85	9	55	50	0	0	50	1.00
5503762--5503809	14	3.4	15	76	23	59	41	0	4	54	1.20
5503703--5503848	28	5.2	28	75	15	106	38	0	1	60	1.06
5503804--5503849	18	2.5	17	86	10	56	34	0	0	65	0.93
5503703--5503847	56	2.6	56	74	12	138	38	0	1	60	1.06
5506646--5506728	28	2.6	34	76	16	88	54	1	0	44	1.08
5506927--5507030	43	2.3	43	79	12	113	46	0	1	50	1.18
5506947--5507044	43	2.4	41	79	12	103	45	1	2	51	1.19
5507163--5507209	14	3.2	14	75	19	51	53	2	0	44	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5507210--5507279	6	10.1	7	72	18	58	40	2	0	57	1.14
5507216--5507285	5	14.2	5	73	19	58	40	1	0	58	1.07
5507210--5507287	13	5.8	13	73	18	63	39	2	0	57	1.12
5507210--5507255	19	2.5	19	82	3	58	36	4	0	58	1.18
5507216--5507271	16	3.6	16	79	13	64	39	1	0	58	1.08
5507223--5507285	29	2.2	29	88	0	90	39	1	0	58	1.07
5507216--5507284	11	5.8	12	77	13	72	40	1	0	57	1.07
5507675--5507708	17	2.0	17	94	0	59	67	0	0	32	0.91
5507874--5507907	2	17.5	2	93	6	61	50	0	0	50	1.00
5509106--5509194	10	8.5	11	68	23	50	50	0	0	49	1.00
5509115--5509194	30	2.6	31	78	11	92	48	0	0	51	1.00
5509504--5509533	15	1.9	16	93	6	53	63	0	0	36	0.95
5509582--5509665	42	2.0	44	81	9	102	44	2	2	51	1.27
5509862--5509930	32	2.1	34	86	8	97	49	0	0	50	1.00
5509861--5509943	16	5.3	17	69	20	56	48	0	0	51	1.00
5509895--5509954	24	2.4	25	81	13	70	50	0	0	50	1.00
5515324--5515351	2	14.0	2	100	0	56	50	0	0	50	1.00
5515603--5515664	27	2.3	26	81	13	65	38	0	4	56	1.21
5515556--5515659	36	2.9	34	71	24	79	36	0	3	59	1.16
5518108--5518147	17	2.3	18	91	4	64	45	0	0	55	0.99
5519654--5519689	3	12.0	3	100	0	72	33	0	0	66	0.92
5526924--5526999	28	2.7	28	70	13	66	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5526957--5526998	22	1.9	22	90	9	68	59	0	0	40	0.97
5527657--5527686	2	15.0	2	100	0	60	0	50	0	50	1.00
5527921--5527949	14	2.0	15	93	6	51	37	0	0	62	0.96
5528136--5528194	28	2.0	31	84	15	81	61	1	8	28	1.35
5528179--5528301	17	6.9	17	69	20	74	56	0	3	39	1.21
5528163--5528223	23	2.5	22	85	15	77	62	0	4	32	1.17
5528179--5528221	13	3.5	12	78	15	52	62	0	4	32	1.15
5528196--5528278	33	2.4	35	80	11	100	56	0	3	39	1.17
5528174--5528311	11	12.5	11	68	23	51	55	0	3	39	1.22
5528259--5528303	25	1.9	25	82	13	60	53	2	2	42	1.25
5528263--5528311	20	2.5	20	78	18	57	55	2	2	40	1.23
5528709--5528746	15	2.7	15	88	8	53	55	0	0	44	0.99
5529033--5529067	16	2.2	16	94	0	61	62	0	0	37	0.95
5529046--5529140	26	3.7	25	72	22	72	66	1	0	32	0.99
5529065--5529210	13	10.6	14	70	19	67	67	0	0	32	0.96
5529042--5529210	18	9.2	18	65	23	68	66	0	0	33	0.97
5529041--5529207	8	20.8	8	70	22	50	66	0	0	32	0.96
5529042--5529207	76	2.3	72	79	14	164	66	0	0	33	0.97
5529140--5529187	7	7.0	7	79	13	55	60	0	0	39	0.97
5529085--5529212	6	22.0	6	73	15	67	66	0	0	32	0.97
5529224--5529296	13	6.0	13	72	18	52	45	1	0	53	1.09
5529266--5529316	20	2.7	18	77	19	50	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5529258--5529327	33	2.2	33	85	10	92	47	0	0	52	1.00
5529249--5529327	33	2.4	31	81	12	88	45	0	0	54	0.99
5539256--5539295	19	2.1	19	86	9	55	50	2	0	47	1.14
5539380--5539425	19	2.3	20	85	7	58	36	2	2	58	1.22
5543828--5543858	2	15.5	2	100	0	62	51	0	0	48	1.00
5552360--5552411	20	2.7	19	80	17	54	48	0	1	50	1.12
5557839--5557878	15	2.6	16	80	11	57	47	0	0	52	1.00
5559695--5559740	11	4.3	11	80	2	58	67	0	0	32	0.91
5559706--5559749	20	2.1	22	87	8	65	61	0	0	38	0.96
5559736--5559794	27	2.1	26	81	12	64	55	0	0	44	0.99
5560304--5560343	20	2.0	20	90	9	64	35	2	0	62	1.09
5561193--5561271	5	17.4	5	66	23	50	37	0	1	60	1.05
5561194--5561266	30	2.5	29	76	18	71	38	0	1	60	1.06
5561160--5561227	18	3.4	19	76	21	68	45	0	0	54	0.99
5561193--5561281	19	4.9	19	70	18	64	37	1	1	60	1.11
5561192--5561285	32	2.9	32	76	16	88	37	1	1	60	1.11
5561229--5561280	13	4.3	13	75	25	51	34	1	0	63	1.06
5561488--5561589	25	3.9	27	69	22	67	48	0	0	51	1.00
5562671--5562758	20	4.1	21	70	25	60	39	2	1	56	1.19
5562671--5562747	19	3.7	20	72	16	59	40	1	1	57	1.15
5565670--5565709	2	20.0	2	94	0	71	0	47	0	52	1.00
5566213--5566238	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5570649--5570674	2	13.0	2	100	0	52	0	0	50	50	1.00
5571591--5571626	2	18.0	2	100	0	72	50	0	50	0	1.00
5575059--5575092	2	17.0	2	100	0	68	0	50	0	50	1.00
5575625--5575715	25	3.6	25	67	17	64	45	0	1	53	1.07
5576379--5576415	3	12.7	3	88	5	58	64	2	0	32	1.07
5578636--5578666	12	2.6	12	94	0	53	22	0	0	77	0.77
5578989--5579246	103	2.4	103	83	6	295	39	10	10	39	1.74
5579513--5579559	21	2.3	19	85	10	58	65	2	0	31	1.04
5581911--5581954	13	3.3	13	87	6	61	38	0	4	56	1.20
5583791--5583819	10	3.0	10	95	5	51	93	0	6	0	0.36
5583791--5583824	17	2.0	17	88	0	50	88	2	8	0	0.62
5584466--5584522	25	2.2	26	81	9	73	54	0	0	45	0.99
5584695--5584759	20	3.1	21	78	12	71	41	0	0	58	0.98
5584786--5584811	2	13.0	2	100	0	52	50	0	0	50	1.00
5585922--5585960	20	2.1	19	85	9	53	43	0	2	53	1.14
5585949--5586013	7	9.1	7	75	14	62	64	0	0	35	0.94
5585957--5586051	16	6.3	15	70	18	72	61	0	0	38	0.96
5586643--5586697	18	3.1	18	76	10	60	30	0	0	69	0.89
5586752--5586812	27	2.3	25	73	18	61	52	0	0	47	1.00
5586751--5586817	28	2.5	27	74	9	66	53	0	0	46	1.00
5590877--5590949	21	3.5	21	67	10	60	50	2	2	43	1.30
5591909--5591961	25	2.1	25	86	6	72	35	0	1	62	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5591919--5591973	26	2.1	26	86	6	76	40	0	0	60	0.97
5592412--5592441	2	15.0	2	100	0	60	50	0	0	50	1.00
5592504--5592561	19	3.1	18	73	7	53	65	0	0	34	0.93
5592504--5592537	18	1.9	18	88	5	52	73	0	0	26	0.83
5592530--5592598	27	2.5	28	77	17	81	50	0	1	47	1.09
5592532--5592598	18	3.6	19	75	22	63	50	0	1	47	1.10
5598150--5598408	139	1.9	139	92	0	437	47	15	14	22	1.82
5603371--5603411	21	2.0	21	95	0	73	56	7	0	36	1.27
5603370--5603417	21	2.2	21	85	3	69	58	8	0	33	1.28
5603662--5603726	24	2.7	23	88	6	94	40	12	0	47	1.41

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