genome.fa.s24505.2.7.7.80.10.50.1000.1.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: AWUE01024505.1 Corchorus olitorius cultivar O-4 contig24538, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  134932

Tables:   1   

This is table  1  of  1  ( 101 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)
4102--4161	19	3.1	19	72	11	59	36	18	15	30	1.91
4172--4388	30	6.9	32	78	8	155	33	15	17	33	1.91
4172--4298	32	3.9	33	72	9	109	36	13	14	36	1.85
4176--4388	65	3.4	62	85	4	252	32	15	17	33	1.92
4241--4422	30	6.0	30	87	1	238	31	19	19	29	1.96
4241--4946	60	11.4	60	82	8	772	29	19	20	30	1.97
4409--4440	16	2.0	16	93	0	55	21	18	31	28	1.97
4379--4468	46	2.0	46	88	0	135	24	22	25	27	2.00
4425--4942	30	17.2	30	91	2	752	28	20	20	30	1.97
5996--6049	23	2.3	25	78	15	62	24	20	5	50	1.69
15666--15769	52	2.0	52	98	0	199	28	8	17	45	1.78
18047--18094	15	3.2	15	82	5	53	43	8	14	33	1.75
18653--18724	34	2.1	34	94	0	126	37	13	33	15	1.87
18784--18909	60	2.1	60	95	0	225	30	13	30	24	1.93
20872--21000	49	2.7	47	83	10	163	28	13	6	51	1.66
21664--21722	19	3.3	19	63	18	54	37	13	32	16	1.88
21652--21723	34	2.1	34	100	0	144	34	13	34	16	1.89
21783--21908	60	2.1	60	95	0	225	30	13	30	24	1.93
23141--23184	23	1.9	23	100	0	88	11	4	40	43	1.61
23638--23685	22	2.2	22	85	7	62	22	14	14	47	1.81
23905--24187	22	13.0	22	71	11	129	37	15	8	39	1.77
23918--24019	46	2.3	44	84	6	125	41	14	7	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23653--24208	44	12.8	43	68	11	210	35	15	10	38	1.81
24286--24455	88	1.9	88	83	2	216	32	14	11	42	1.80
24287--24526	22	10.9	22	73	9	148	33	12	10	42	1.78
24891--25962	537	2.0	540	88	2	1620	34	14	17	33	1.90
30149--30173	2	12.5	2	100	0	50	48	0	0	52	1.00
30784--30826	22	2.0	21	86	4	59	18	2	32	46	1.62
31355--31391	7	5.3	7	100	0	74	40	0	27	32	1.57
32050--32086	2	18.5	2	100	0	74	48	0	0	51	1.00
35390--35463	36	2.1	36	97	0	139	36	28	6	28	1.82
36288--36320	16	2.1	16	88	11	50	30	6	6	57	1.47
40597--40622	4	6.5	4	100	0	52	0	23	0	76	0.78
42655--42689	17	2.0	18	88	5	54	51	2	14	31	1.57
43743--43931	50	3.7	50	80	5	184	43	4	14	37	1.66
44534--45008	41	10.9	42	78	10	370	21	26	17	34	1.95
44534--44998	175	2.6	176	90	1	745	21	26	17	34	1.96
44534--44998	89	5.3	86	76	11	392	21	26	17	34	1.96
44534--45008	130	3.6	130	82	8	461	21	26	17	34	1.95
44978--45212	48	4.9	47	89	2	335	13	23	20	42	1.87
45193--45232	20	2.0	20	90	0	62	17	22	7	52	1.69
64237--64303	31	2.2	31	83	0	80	28	14	23	32	1.95
67899--67959	29	2.1	29	93	0	104	11	11	32	44	1.76
67905--67986	29	2.8	29	87	3	103	10	10	35	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70726--70757	2	16.0	2	93	0	55	3	0	46	50	1.17
70793--70821	15	2.0	15	93	6	51	62	13	6	17	1.52
74870--74906	15	2.4	17	86	13	53	37	40	13	8	1.74
75405--75485	42	1.9	42	100	0	162	28	7	28	35	1.84
81930--81986	26	2.2	26	81	6	62	43	21	7	28	1.78
87851--87896	18	2.5	19	72	10	51	39	17	4	39	1.69
87874--88346	165	2.8	166	84	6	611	38	9	7	44	1.65
87874--88279	165	2.5	165	90	3	622	38	9	7	45	1.64
88242--88289	24	2.0	24	84	8	62	45	0	2	52	1.12
88360--88398	20	2.0	20	85	10	53	28	7	2	61	1.37
88575--88799	22	10.1	21	71	9	135	37	9	16	36	1.81
88590--88751	66	2.4	68	81	9	199	35	10	18	35	1.85
88804--88950	22	6.7	22	76	13	124	36	8	17	37	1.81
88804--88964	44	3.7	42	76	12	146	37	8	18	36	1.80
88804--88950	65	2.2	65	77	13	158	36	8	17	37	1.81
89004--89057	22	2.4	21	82	14	63	38	12	14	33	1.85
89373--89411	18	2.2	18	90	0	60	64	0	0	35	0.94
89588--89667	22	3.7	21	77	3	79	41	11	10	37	1.74
89817--90068	22	11.5	21	69	18	106	38	9	16	35	1.80
89966--90067	23	4.5	23	83	8	120	35	7	16	40	1.78
90089--90147	22	2.7	22	73	5	57	30	6	18	44	1.76
94251--94287	19	1.9	19	94	0	65	37	13	18	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94733--94796	21	3.2	20	82	8	76	35	12	20	31	1.90
94739--94796	19	2.9	19	84	5	71	36	12	20	31	1.89
93894--94849	488	2.0	488	98	0	1840	28	18	20	32	1.96
95773--95798	7	3.7	7	100	0	52	88	0	0	11	0.52
95759--95792	16	2.1	16	88	0	50	85	2	2	8	0.80
96037--96088	26	1.9	28	84	7	72	63	11	5	19	1.47
103494--103618	22	5.8	21	76	7	108	40	14	8	36	1.77
103494--103597	43	2.4	45	82	4	124	39	14	9	36	1.79
106254--106316	22	2.9	22	75	0	63	26	11	9	52	1.67
106298--106370	22	3.4	21	75	9	67	35	13	12	38	1.83
106424--106483	22	2.7	22	76	5	68	40	11	11	36	1.78
106468--106573	23	4.7	22	81	10	108	39	14	8	37	1.76
106482--106573	23	4.0	23	84	8	116	39	16	7	36	1.77
106448--106574	22	5.7	22	81	5	121	39	14	8	37	1.78
106577--106651	22	3.4	21	73	8	78	28	14	10	46	1.78
106576--106693	44	2.7	44	80	7	127	29	16	10	44	1.80
106776--106964	22	8.7	22	73	9	113	34	13	10	41	1.79
106800--106964	44	3.8	44	78	4	140	35	13	9	40	1.78
106861--107010	22	6.7	23	74	9	107	36	13	10	40	1.78
107050--107211	22	7.4	21	70	16	82	37	19	8	35	1.81
107251--107359	46	2.4	43	84	6	128	35	18	9	36	1.83
107216--107426	22	9.5	22	76	11	180	37	18	8	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108768--108848	22	3.8	22	83	4	103	35	7	9	46	1.65
108830--108878	22	2.2	22	96	0	89	22	20	10	46	1.80
109290--109330	2	20.5	2	89	0	64	46	2	48	2	1.28
110016--110106	45	2.0	45	93	0	155	29	15	13	41	1.85
118011--118128	60	2.0	60	89	3	184	32	17	18	31	1.95
118920--119039	31	3.9	31	84	0	132	20	23	24	32	1.98
118921--119039	62	1.9	62	82	0	148	20	22	24	32	1.98
120156--120209	28	1.9	28	88	0	81	38	0	14	46	1.45
127299--127327	2	14.5	2	100	0	58	48	0	0	51	1.00
127421--127462	18	2.3	18	95	4	75	38	4	4	52	1.44
127446--127494	23	2.0	23	84	7	62	36	10	6	46	1.63
127733--127842	55	2.0	55	98	0	211	27	30	3	39	1.74
129351--129402	19	2.8	19	72	13	54	50	0	1	48	1.12

Tables:   1

The End!