genome.fa.s18060.2.7.7.80.10.50.1000.1.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: AWUE01018060.1 Corchorus olitorius cultivar O-4 contig18093, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  151365

Tables:   1   

This is table  1  of  1  ( 91 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)
1475--1510	2	18.0	2	94	0	63	47	0	2	50	1.15
1742--1942	108	1.9	108	96	0	375	36	15	14	33	1.88
4371--4434	33	1.9	33	90	0	101	15	32	35	15	1.90
4637--4680	21	2.0	21	91	4	70	43	9	38	9	1.68
14200--14253	14	3.6	16	69	21	53	50	1	0	48	1.11
15909--15947	20	2.0	20	94	0	69	23	17	0	58	1.38
19756--19796	21	2.0	21	85	0	55	34	12	29	24	1.91
20197--20241	17	2.7	15	81	18	54	20	11	4	64	1.42
21852--21895	22	2.0	22	100	0	88	27	9	13	50	1.72
22132--22161	2	15.0	2	92	0	51	46	0	3	50	1.18
23790--23817	2	14.0	2	100	0	56	50	0	0	50	1.00
29617--31074	162	9.0	162	92	0	2403	28	23	19	28	1.98
31789--31831	21	2.1	21	86	4	61	27	18	16	37	1.92
33270--33294	9	2.8	9	100	0	50	24	32	32	12	1.91
34801--35143	124	2.8	123	88	2	512	23	26	26	23	2.00
38264--38344	36	2.2	36	84	0	108	32	23	18	25	1.97
39930--40002	29	2.5	29	82	8	103	36	30	13	19	1.90
40060--40213	42	3.7	42	79	0	155	25	22	16	35	1.94
44630--44658	15	1.9	15	100	0	58	13	6	6	72	1.26
51363--51412	15	3.5	15	82	15	61	82	16	2	0	0.77
51874--51915	12	3.6	12	90	6	68	80	19	0	0	0.70
51874--51916	11	3.7	11	93	6	68	81	18	0	0	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53928--54068	67	2.1	67	97	0	264	38	12	23	25	1.90
54060--54201	64	2.2	64	97	0	266	34	18	23	23	1.96
54162--54240	39	2.0	39	87	0	113	29	17	21	31	1.96
54058--54369	168	1.9	167	85	4	441	34	16	22	26	1.95
54212--54441	65	3.6	64	85	2	282	36	12	21	29	1.90
54686--54884	50	3.9	50	84	3	229	38	13	24	24	1.91
54812--54893	27	3.1	26	77	8	103	40	12	24	23	1.88
56855--57198	124	2.8	124	89	0	508	25	27	23	23	2.00
57480--57514	18	1.9	18	88	0	52	28	25	17	28	1.97
61238--61426	94	2.0	95	97	2	362	53	12	13	20	1.71
62109--62147	20	2.1	19	85	9	53	43	33	5	17	1.72
62236--62276	18	2.3	19	87	8	59	36	24	4	34	1.77
62745--62803	25	2.3	27	91	5	95	38	32	13	15	1.86
63204--63246	21	2.1	21	86	4	61	23	23	0	53	1.46
73633--73718	41	2.1	41	86	0	118	38	11	17	32	1.86
74312--74582	94	2.8	96	89	5	386	38	5	18	37	1.75
76462--76493	2	16.0	2	100	0	64	50	0	0	50	1.00
78479--79428	443	2.2	437	90	3	1494	26	13	17	42	1.86
80511--80571	31	2.0	31	86	0	86	29	32	6	31	1.83
82195--82239	2	23.5	2	82	8	58	46	2	0	51	1.13
88446--88510	33	2.0	33	93	0	112	41	30	0	27	1.56
90251--90398	22	6.8	21	72	11	86	38	15	8	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
90329--90425	43	2.3	42	76	15	99	35	18	6	40	1.76
90271--90421	22	7.0	22	74	12	116	36	16	7	39	1.76
90389--90436	21	2.4	19	77	16	51	27	14	10	47	1.76
93427--93457	2	15.5	2	93	0	53	51	0	45	3	1.17
95513--95553	20	2.0	21	95	4	75	80	4	4	9	1.00
101025--101166	2	76.5	2	67	19	58	50	2	0	47	1.13
100999--101127	33	4.3	31	66	22	87	51	3	0	44	1.25
101078--101173	24	4.0	23	72	15	79	52	2	1	44	1.19
101047--101199	72	2.1	75	92	4	258	50	2	1	45	1.23
101086--101243	22	7.0	23	68	20	84	51	3	1	43	1.25
111054--111093	20	2.0	20	85	0	53	52	0	0	47	1.00
113566--113610	13	3.3	13	84	9	54	64	24	6	4	1.37
114152--114346	43	4.6	43	90	2	295	41	28	9	21	1.84
114152--114346	84	2.3	86	90	1	295	41	28	9	21	1.84
114435--114462	2	14.0	2	100	0	56	0	0	50	50	1.00
118867--118972	47	2.3	47	93	3	178	28	15	5	50	1.66
119302--119953	47	13.6	47	88	4	903	30	18	4	47	1.68
119919--119994	38	2.0	38	97	0	143	31	14	7	46	1.73
125051--125108	30	1.9	31	82	3	73	36	25	22	15	1.94
125662--125827	72	2.3	71	93	1	287	23	25	20	30	1.99
125767--125883	56	2.1	56	88	1	173	22	23	20	33	1.97
125822--125986	72	2.3	71	94	1	285	18	27	20	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
129342--129670	43	7.8	42	88	4	493	41	27	10	20	1.85
129342--129670	84	3.9	84	96	0	606	41	27	10	20	1.85
129736--129762	2	13.5	2	100	0	54	48	0	0	51	1.00
133367--133392	2	13.0	2	100	0	52	50	0	0	50	1.00
134278--134716	35	12.4	35	86	5	544	42	18	12	26	1.86
134299--134358	19	3.2	19	65	13	52	48	16	6	28	1.71
134278--134716	175	2.5	178	90	2	652	42	18	12	26	1.86
134703--134962	54	4.8	56	83	8	263	32	20	16	30	1.95
134703--134957	108	2.4	108	83	4	291	32	20	16	30	1.95
139631--139656	2	13.0	2	100	0	52	50	0	0	50	1.00
140546--140785	126	1.9	126	95	1	437	15	15	32	36	1.89
140754--140849	27	3.7	26	75	17	110	12	14	35	36	1.84
140628--141048	176	2.5	163	89	7	598	14	14	32	37	1.87
140909--140993	42	2.0	42	100	0	170	16	9	32	41	1.80
140909--140973	22	3.0	22	65	17	64	15	9	32	43	1.78
140922--140990	22	3.2	22	66	22	65	15	8	36	39	1.79
140927--140994	20	3.3	20	69	15	66	17	10	32	39	1.84
141049--141083	18	1.9	18	100	0	70	14	17	28	40	1.88
146581--146625	16	2.8	16	100	0	90	28	0	17	53	1.44
148662--148712	24	2.1	24	100	0	102	25	19	29	25	1.99
148765--148790	12	2.2	12	100	0	52	42	0	19	38	1.51
149432--149504	1	73.0	1	75	0	65	87	12	0	0	0.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
149432--149504	15	4.7	15	84	5	101	87	12	0	0	0.54
149432--149505	20	3.8	20	87	10	102	86	13	0	0	0.57
149892--149965	33	2.2	33	87	0	103	6	35	40	17	1.76

Tables:   1

The End!