genome.fa.s15112.2.7.7.80.10.50.1000.1.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: AWUE01015112.1 Corchorus olitorius cultivar O-4 contig15145, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  212229

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)
9--55	2	23.5	2	91	0	76	48	4	0	46	1.21
7193--7230	15	2.5	15	83	12	51	36	0	18	44	1.50
20664--20712	25	2.0	25	91	0	80	12	16	10	61	1.57
26266--26321	23	2.4	23	81	0	67	17	19	19	42	1.89
26198--26338	73	1.9	73	95	0	255	19	16	20	43	1.87
29589--29617	2	15.0	2	92	7	51	51	0	0	48	1.00
33726--33766	7	6.1	7	80	11	50	51	0	2	46	1.14
35196--35394	31	6.6	30	74	15	171	32	21	19	26	1.97
35198--35394	91	2.2	91	91	1	315	32	21	19	26	1.97
37216--37275	21	2.9	21	87	7	79	23	10	21	45	1.82
40907--40949	8	5.1	8	91	8	68	34	23	4	37	1.76
40907--40948	17	2.5	17	100	0	84	35	23	4	35	1.76
40907--40970	11	6.8	10	81	13	50	35	21	4	37	1.75
41221--41547	41	7.8	40	72	13	219	18	26	19	35	1.95
41197--41547	88	4.1	88	85	6	393	18	26	19	35	1.94
41311--41547	40	5.7	40	76	10	217	17	28	20	34	1.95
46551--46582	12	2.7	12	100	0	64	53	31	15	0	1.43
55174--55339	59	2.8	59	87	6	237	27	18	18	35	1.94
58348--58372	13	1.9	13	100	0	50	96	4	0	0	0.24
58347--58374	14	2.0	14	100	0	56	92	7	0	0	0.37
68416--68441	12	2.2	12	100	0	52	69	23	0	7	1.14
69117--69169	20	2.5	20	80	11	63	7	18	0	73	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69122--69169	21	2.3	22	85	7	64	6	16	0	77	0.97
69122--69168	22	2.1	22	88	7	69	6	14	0	78	0.93
71697--71733	13	2.9	14	84	15	53	67	13	18	0	1.23
72371--72420	16	2.9	16	75	16	55	8	18	52	22	1.71
72792--72834	17	2.4	18	96	3	79	18	0	4	76	0.95
72917--72973	6	8.8	6	76	14	51	77	0	19	3	0.92
72938--72973	6	5.8	6	90	6	54	83	0	13	2	0.76
73619--73661	22	2.0	22	82	13	54	76	2	9	11	1.10
77856--77901	23	2.0	23	95	0	83	36	26	4	32	1.76
78574--78637	32	1.9	33	84	12	87	60	0	25	14	1.33
80556--81585	230	4.5	221	81	11	1024	25	15	21	36	1.93
80562--81616	113	9.3	113	80	11	1122	25	15	21	37	1.93
80568--81616	343	3.1	343	89	3	1514	25	15	22	36	1.93
81406--81623	35	6.1	33	78	10	166	22	15	23	38	1.92
82836--82875	21	1.9	21	85	10	55	20	0	32	47	1.50
82941--82986	19	2.6	17	78	15	58	2	21	58	17	1.49
82942--82982	19	2.2	19	95	0	73	2	21	60	14	1.45
84189--84247	24	2.6	23	81	5	66	71	1	13	13	1.23
86994--87044	25	2.0	25	100	0	102	15	7	29	47	1.74
88913--88991	29	2.7	29	84	4	86	30	12	24	32	1.92
94230--94301	24	3.0	24	87	6	101	22	20	33	23	1.97
98523--98616	24	3.9	24	85	0	125	22	19	36	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
98526--98618	48	1.9	48	91	0	150	23	18	35	22	1.96
100279--100320	15	2.7	15	88	3	57	64	16	9	9	1.49
103598--103647	21	2.4	21	89	0	73	14	24	44	18	1.86
106736--106839	33	3.2	31	80	11	111	44	11	5	38	1.65
106736--106839	34	3.2	32	77	15	106	44	11	5	38	1.65
106741--106839	30	3.1	30	78	16	92	42	12	6	39	1.67
107272--107313	15	2.7	15	88	3	57	64	16	9	9	1.49
114718--114742	2	12.5	2	100	0	50	52	48	0	0	1.00
117882--118001	41	3.0	40	80	3	152	45	24	9	20	1.80
117877--117997	40	3.0	40	81	2	152	46	23	9	20	1.80
120398--120440	22	2.0	22	90	0	68	72	0	6	20	1.08
120451--120475	9	2.8	9	100	0	50	80	0	20	0	0.72
124842--124887	22	2.1	22	100	0	92	23	30	15	30	1.95
132028--132081	19	2.6	21	77	19	60	38	18	3	38	1.69
133078--133127	26	1.9	26	84	8	66	42	22	14	22	1.88
136038--136084	15	3.1	15	87	3	58	48	2	0	48	1.13
136039--136091	11	4.8	11	77	6	54	47	1	0	50	1.12
142088--142141	19	2.8	19	86	13	67	16	3	18	61	1.49
142185--142234	20	2.5	20	87	6	66	42	0	22	36	1.54
142551--142839	36	8.0	36	84	4	361	45	9	16	28	1.79
142563--143112	108	5.2	107	80	8	604	44	10	15	29	1.80
142812--142867	28	2.0	28	86	6	78	44	12	12	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
142749--142939	100	1.9	100	87	4	278	44	11	14	29	1.80
142840--143108	36	7.5	36	80	5	276	44	10	14	29	1.79
142840--143113	72	3.8	73	81	3	306	44	10	15	29	1.80
144066--144112	22	2.1	23	84	4	60	42	19	2	36	1.63
148491--148525	2	17.5	2	100	0	70	0	48	0	51	1.00
150687--150727	21	2.0	21	95	0	73	19	9	14	56	1.66
151146--151171	12	2.2	12	100	0	52	7	0	23	69	1.14
152463--152522	22	2.7	22	72	20	54	18	11	3	66	1.36
154577--154732	84	1.9	83	87	4	233	29	14	5	51	1.63
155578--155689	48	2.4	47	88	7	149	12	47	23	16	1.81
155602--155689	24	3.7	24	100	0	176	11	47	23	17	1.79
158436--158573	33	4.2	33	81	5	129	27	7	21	43	1.80
166008--166039	2	16.0	2	100	0	64	50	0	0	50	1.00
169082--169171	45	2.1	43	89	6	137	38	22	4	34	1.74
171828--171867	14	2.8	14	84	3	53	50	2	0	47	1.14
172225--172250	13	2.0	13	100	0	52	53	30	0	15	1.42
173773--173823	22	2.3	22	83	6	59	43	9	7	39	1.67
182438--182466	6	4.8	6	100	0	58	31	34	0	34	1.58
185119--185158	14	2.8	14	84	3	53	50	2	0	47	1.14
204315--204773	225	2.0	225	99	0	909	23	19	20	36	1.95
205252--205373	33	3.6	33	94	2	199	31	17	8	43	1.78
205410--205716	109	2.8	107	82	7	343	23	18	11	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
205410--205716	146	2.1	145	81	7	363	23	18	11	45	1.83
205653--205944	35	8.0	39	79	12	157	25	16	11	46	1.81
205228--205954	36	20.1	35	80	9	430	25	17	11	45	1.81

Tables:   1

The End!