genome.fa.s6164.2.7.7.80.10.50.1000.1.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: AWWV01006164.1 Corchorus capsularis cultivar CVL-1 contig06182, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  145571

Tables:   1   

This is table  1  of  1  ( 74 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)
3164--3194	16	1.9	16	100	0	62	90	9	0	0	0.46
12400--12459	11	5.6	11	72	7	52	40	3	0	56	1.16
12414--12459	20	2.3	20	84	0	56	43	4	0	52	1.21
13154--13178	13	1.9	13	100	0	50	40	16	12	32	1.84
14637--14666	9	3.4	9	95	4	53	43	33	10	13	1.77
16764--16809	19	2.3	20	88	7	76	4	19	0	76	0.96
18533--18721	66	2.9	66	83	10	251	37	17	20	25	1.94
18769--19015	67	3.7	67	83	5	284	40	17	19	22	1.91
19652--19682	16	1.9	16	93	0	53	41	22	0	35	1.54
19974--20012	15	2.7	15	88	4	53	2	20	0	76	0.90
23086--23250	32	4.8	36	78	14	186	27	23	7	41	1.82
23094--23250	68	2.3	68	91	0	260	27	24	7	40	1.82
23246--23476	41	5.5	41	86	3	293	23	19	9	46	1.80
23246--23476	123	1.8	125	86	5	333	23	19	9	46	1.80
23242--23504	41	6.3	44	85	9	174	23	20	9	47	1.78
23471--24076	36	16.5	37	85	3	690	27	21	7	44	1.79
24592--24659	25	2.7	25	81	2	82	45	20	14	19	1.85
26981--27179	96	2.1	96	99	0	389	9	20	18	52	1.72
27512--27552	3	13.7	3	100	0	82	31	0	0	68	0.90
31805--31932	66	1.9	66	85	3	175	51	24	12	11	1.73
32163--32192	14	2.1	14	100	0	60	56	13	0	30	1.37
32708--32783	13	5.7	12	73	17	53	76	1	21	1	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32688--32739	25	2.0	25	85	10	70	73	0	25	1	0.94
32706--32779	21	3.6	20	78	12	87	77	1	20	1	0.92
32703--32783	6	13.3	6	72	18	53	77	1	19	1	0.90
32704--32776	28	2.5	31	78	12	75	78	1	19	1	0.91
32706--32777	7	10.4	7	76	8	60	77	1	19	1	0.91
38751--38857	54	2.0	54	87	7	155	21	17	37	23	1.94
38838--38892	28	2.0	28	89	3	85	21	12	41	23	1.88
38865--39046	42	4.3	42	87	1	274	24	17	32	25	1.96
38865--39046	85	2.2	84	89	1	274	24	17	32	25	1.96
39310--39466	79	2.0	79	92	0	260	24	15	30	29	1.95
39525--39581	30	1.9	30	85	0	78	33	15	24	26	1.95
42513--42603	26	3.5	26	76	5	103	19	15	37	27	1.92
42643--42797	23	6.8	24	79	7	171	14	17	40	28	1.88
42643--42796	46	3.3	46	92	1	247	13	17	40	28	1.88
43357--43793	37	11.8	37	89	0	613	16	22	30	29	1.96
43356--43793	149	2.9	148	88	2	601	16	22	30	30	1.96
43357--43793	186	2.3	186	87	1	626	16	22	30	29	1.96
45348--45579	44	5.3	44	95	0	401	16	14	25	43	1.86
45346--45621	132	2.1	131	85	4	367	15	15	25	43	1.86
45863--45924	25	2.5	25	94	0	106	11	30	32	25	1.91
46500--46719	89	2.5	87	86	3	296	15	26	30	27	1.96
46755--46926	90	1.9	90	90	0	272	13	27	33	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49580--49640	23	2.7	23	84	5	70	16	21	39	22	1.92
49604--49652	23	2.1	23	85	7	64	22	16	34	26	1.95
53092--53125	1	34.0	1	100	0	68	0	0	0	100	0.00
54116--54382	81	3.3	81	99	0	525	35	11	12	40	1.79
54655--54744	45	2.0	45	86	4	128	26	24	18	30	1.98
54940--55003	3	21.0	3	96	3	119	34	0	0	65	0.93
59104--59158	26	2.0	28	86	6	78	41	21	18	18	1.90
63808--63848	2	20.5	2	84	0	55	41	0	7	51	1.30
66991--67059	31	2.2	31	89	0	102	40	8	17	33	1.80
67554--67585	12	2.7	12	95	0	55	56	18	6	18	1.62
69992--70025	2	17.0	2	100	0	68	50	50	0	0	1.00
76054--76083	6	5.0	6	100	0	60	33	0	33	33	1.58
79938--80045	31	3.5	31	79	1	119	28	8	24	38	1.84
80869--81090	112	2.0	109	84	2	291	44	21	13	20	1.85
84976--85095	27	4.5	27	80	5	127	25	26	25	22	2.00
84933--85095	54	3.0	54	75	3	159	25	26	25	22	2.00
86109--86182	24	3.1	24	72	0	67	35	32	14	17	1.91
94636--94700	32	2.0	32	93	0	112	24	9	15	50	1.73
101391--101473	32	2.6	32	94	0	139	55	21	2	20	1.55
101423--101473	16	3.2	16	67	10	50	54	23	1	19	1.54
101482--101593	34	3.3	34	90	3	165	42	17	8	30	1.80
101792--101821	15	2.0	15	93	0	51	83	0	13	3	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
113021--113456	219	2.0	219	94	0	773	30	21	15	33	1.94
119478--119543	34	2.0	33	87	3	96	27	1	19	51	1.56
119644--119689	22	2.0	23	83	4	58	56	17	4	21	1.58
124585--124619	2	18.0	2	88	5	54	45	0	2	51	1.16
124581--124613	10	3.3	10	95	0	57	42	0	6	51	1.26
131294--131323	2	15.0	2	100	0	60	50	0	0	50	1.00
142517--142541	6	4.2	6	100	0	50	68	0	32	0	0.90
142739--142768	10	3.0	10	95	0	51	56	0	43	0	0.99

Tables:   1

The End!