genome.fa.s16031.2.7.7.80.10.50.1000.1.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: AWWV01016031.1 Corchorus capsularis cultivar CVL-1 contig16052, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  179749

Tables:   1   

This is table  1  of  1  ( 72 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)
2272--2330	29	2.0	29	100	0	118	13	30	13	42	1.83
6811--6861	25	2.0	26	85	11	70	43	15	1	39	1.58
8673--8726	25	2.2	25	96	0	99	55	1	0	42	1.10
10295--10350	28	2.0	28	96	0	103	17	26	17	37	1.93
16268--16312	14	3.4	12	87	12	54	55	2	0	42	1.12
18703--18727	12	2.1	12	100	0	50	16	0	8	76	1.02
25589--25669	31	2.6	31	92	3	128	29	14	4	50	1.64
26125--26185	31	2.0	31	83	6	79	29	18	3	49	1.63
28094--28124	16	1.9	16	93	0	53	9	6	35	48	1.62
28100--28142	16	2.6	16	81	3	50	9	9	30	51	1.65
37984--38021	15	2.5	15	91	0	58	31	2	31	34	1.72
52974--53000	6	4.5	6	100	0	54	62	37	0	0	0.95
54325--54393	16	4.4	16	76	5	70	7	23	39	30	1.82
54618--54699	42	2.0	42	87	0	119	39	6	17	37	1.74
55230--55323	16	5.9	15	75	13	82	10	22	34	32	1.88
55233--55323	32	2.9	30	83	6	110	10	21	34	32	1.89
57026--57056	2	15.5	2	100	0	62	48	0	0	51	1.00
58041--58089	22	2.2	22	88	0	71	40	10	20	28	1.85
58049--58092	22	2.0	22	100	0	88	36	4	22	36	1.75
66321--66403	41	2.0	41	95	0	148	38	14	15	31	1.88
66753--66779	6	4.5	6	100	0	54	14	18	66	0	1.25
68537--68566	7	4.3	7	91	0	51	33	13	26	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
83815--83867	23	2.3	23	87	9	81	75	0	18	5	0.99
83815--83873	24	2.5	24	86	5	84	72	1	20	5	1.12
89991--90063	24	3.0	24	95	0	128	24	8	17	49	1.74
99703--99742	20	2.0	20	90	0	62	50	7	2	40	1.44
110193--110228	16	2.3	16	90	4	56	50	5	13	30	1.65
111018--111044	1	27.0	1	100	0	54	100	0	0	0	0.00
111564--111591	7	4.0	7	100	0	56	14	42	28	14	1.84
113349--113391	20	2.2	20	87	8	61	55	2	0	41	1.12
116581--116630	19	2.6	19	87	9	68	36	16	0	48	1.46
116595--116638	13	3.2	13	90	6	61	36	15	0	47	1.46
116858--116919	31	2.0	31	83	0	79	29	17	8	45	1.77
125738--125762	11	2.3	11	100	0	50	32	12	0	56	1.36
137766--137795	15	2.0	15	93	0	51	83	10	0	6	0.81
139862--139902	4	10.8	4	84	10	59	73	2	0	24	0.96
139858--139901	18	2.4	19	88	7	65	72	2	0	25	0.96
145714--145905	95	2.0	96	94	1	341	46	16	18	19	1.84
148492--148533	1	42.0	1	100	0	84	100	0	0	0	0.00
151064--151091	2	14.0	2	100	0	56	50	0	0	50	1.00
153818--153851	2	17.5	2	93	6	61	50	0	0	50	1.00
157087--157118	14	2.3	14	94	0	55	15	18	15	50	1.79
158744--158782	3	13.0	3	100	0	78	33	0	0	66	0.92
159416--159775	182	2.0	179	90	3	573	47	13	12	26	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
164631--164665	2	17.0	2	94	5	61	48	2	0	48	1.16
165418--165456	2	19.0	2	94	5	69	48	2	0	48	1.15
165511--165560	22	2.4	22	86	6	68	46	6	4	44	1.47
165584--165644	22	2.7	22	85	9	79	31	19	6	42	1.77
165650--165724	22	3.4	21	77	5	60	36	13	14	36	1.85
165754--165986	22	10.8	20	68	14	108	38	15	7	38	1.76
165779--165981	44	4.7	43	76	11	157	37	15	6	39	1.75
166067--166143	22	3.5	22	76	1	66	42	12	6	37	1.69
166067--166116	21	2.3	21	86	3	64	38	10	6	46	1.62
166194--166256	22	2.8	22	75	15	58	31	23	9	34	1.87
166355--166659	22	13.6	22	68	13	140	37	14	9	38	1.79
166355--166517	44	3.7	43	77	9	168	35	15	10	38	1.82
166355--166597	22	10.8	22	71	13	145	36	15	10	38	1.81
166564--166687	44	2.8	44	81	6	119	43	14	8	33	1.75
166603--166679	22	3.5	22	77	13	79	42	12	6	37	1.69
167185--167240	28	2.0	28	100	0	112	35	10	10	42	1.74
167999--168032	2	16.5	2	87	6	50	47	0	5	47	1.26
168441--168480	21	2.0	20	85	5	53	27	2	22	47	1.64
168726--168788	24	2.6	24	90	7	101	38	6	6	49	1.54
168726--168788	23	2.7	23	92	5	99	38	6	6	49	1.54
168739--168800	23	2.8	22	85	9	72	41	11	4	41	1.62
168763--168806	22	2.0	21	82	4	52	40	13	6	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
169125--169175	27	2.0	25	85	14	70	33	7	15	43	1.76
170527--170586	29	2.1	29	90	0	93	30	3	20	46	1.66
171649--171691	2	21.5	2	90	0	59	41	2	4	51	1.35
171633--171689	26	2.2	26	93	0	96	35	3	10	50	1.54
171633--171703	28	2.7	26	82	8	97	33	4	11	50	1.57
177867--177905	2	19.0	2	94	5	69	48	0	2	48	1.15

Tables:   1

The End!