genome.fa.s20406.2.7.7.80.10.50.1000.1.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: AWUE01020406.1 Corchorus olitorius cultivar O-4 contig20439, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  231827

Tables:   1   

This is table  1  of  1  ( 81 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)
1--1182	334	3.6	332	89	0	1722	35	17	15	31	1.92
1346--1376	2	15.5	2	100	0	62	51	0	0	48	1.00
1455--2140	333	2.1	332	84	2	901	34	16	17	31	1.92
1856--2429	290	2.0	290	87	1	821	33	16	18	31	1.94
2146--3923	319	5.4	326	81	7	1435	35	17	15	31	1.91
3707--4117	215	1.9	215	86	4	589	37	16	9	35	1.82
4345--5143	332	2.4	331	82	6	951	35	13	14	36	1.86
5503--5532	15	1.9	16	93	6	53	53	3	0	43	1.17
6083--6208	45	2.8	45	92	0	216	38	19	7	34	1.81
8264--8365	53	1.9	53	95	0	186	46	14	6	32	1.71
10850--10890	3	13.0	3	85	10	55	34	2	0	63	1.08
17187--17218	2	16.0	2	93	0	55	53	0	0	46	1.00
31229--31271	21	2.0	21	86	8	61	55	13	6	23	1.62
35250--35315	32	2.1	32	100	0	132	43	9	3	43	1.51
39938--39962	12	2.1	12	100	0	50	84	0	16	0	0.63
39936--39966	14	2.2	14	94	0	53	83	0	16	0	0.64
44926--44955	3	10.0	3	92	0	51	63	0	36	0	0.95
54449--54491	16	2.7	16	77	0	50	37	32	16	13	1.88
54479--54520	12	3.6	12	75	18	52	30	40	21	7	1.80
54956--55027	31	2.3	31	75	17	78	26	4	8	61	1.43
55313--55348	17	2.1	17	94	0	63	25	50	22	2	1.63
57247--57277	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61580--61604	1	25.0	1	100	0	50	0	0	0	100	0.00
62307--62341	2	17.5	2	100	0	70	51	0	0	48	1.00
62604--62628	12	2.1	12	100	0	50	44	16	24	16	1.86
63310--63348	16	2.3	17	82	8	53	53	23	10	12	1.69
63677--63768	47	2.0	47	95	0	166	50	11	10	27	1.73
72867--72893	3	9.0	3	100	0	54	66	0	0	33	0.92
94177--94236	31	1.9	31	89	0	93	28	16	18	36	1.93
101016--101090	28	2.6	30	89	8	127	25	18	13	42	1.87
108431--108503	31	2.4	30	80	11	76	38	17	5	38	1.73
109008--109076	35	2.0	35	91	0	111	36	27	15	20	1.93
109948--110239	114	2.6	110	81	4	311	35	17	21	24	1.95
113796--113844	22	2.3	22	78	3	55	12	53	0	34	1.39
121679--121709	15	2.0	16	93	6	55	67	0	12	19	1.22
124943--124981	15	2.4	17	79	20	55	28	10	33	28	1.90
124953--124981	15	1.9	15	100	0	58	27	13	31	27	1.94
126460--126673	52	4.1	52	95	3	376	55	7	13	23	1.64
127177--127629	97	4.7	95	82	5	525	30	22	17	29	1.97
127177--127639	194	2.4	194	86	2	610	31	22	17	29	1.96
127766--127883	58	2.0	58	98	0	227	34	24	7	33	1.84
129889--129951	1	63.0	1	83	0	72	90	6	1	1	0.57
129891--129951	24	2.6	23	89	7	95	90	6	1	1	0.59
129894--129958	21	3.2	21	78	10	82	86	7	4	1	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
129890--129958	15	4.3	15	78	12	57	86	7	4	1	0.73
131645--131726	41	2.0	42	87	2	121	45	10	7	36	1.67
134744--134801	23	2.4	24	80	11	66	25	13	22	37	1.91
148808--148857	26	1.9	26	100	0	100	60	14	26	0	1.34
149906--149939	16	2.1	16	88	0	50	61	17	0	20	1.34
152518--152554	19	1.9	19	88	0	56	62	2	13	21	1.44
154219--154259	20	2.1	19	95	4	73	34	19	21	24	1.97
155405--155429	13	1.9	13	100	0	50	36	0	24	40	1.55
158551--158588	10	3.9	10	83	16	53	31	15	0	52	1.43
158897--159018	22	5.6	22	74	8	106	31	8	17	42	1.78
159030--159221	22	8.8	22	70	7	104	37	10	17	34	1.84
159297--159351	22	2.4	23	78	3	67	40	9	20	30	1.83
159323--159439	61	1.9	60	86	5	164	34	5	21	39	1.75
159426--159524	22	4.5	22	75	5	85	40	7	17	35	1.77
159426--159541	44	2.6	42	74	11	108	38	6	17	37	1.76
159556--159806	22	11.7	21	74	11	109	37	6	18	37	1.78
159577--159851	43	6.4	43	74	15	162	38	7	17	37	1.78
159575--159849	129	2.1	127	81	10	310	37	7	17	37	1.79
159658--159849	107	1.8	106	82	10	248	38	7	17	36	1.78
159911--159980	22	3.2	21	74	11	61	32	5	17	44	1.72
160070--160136	22	3.1	22	81	12	86	41	5	10	41	1.64
162444--162507	21	3.2	20	82	8	85	31	20	10	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
162565--162608	21	2.2	20	87	4	61	36	11	20	31	1.88
163537--163577	20	2.0	20	95	0	73	14	29	34	21	1.93
163542--163586	20	2.2	20	84	0	54	17	33	35	13	1.89
175183--175208	11	2.4	11	100	0	52	7	15	7	69	1.35
184620--184656	13	2.8	13	87	0	56	40	29	5	24	1.77
184850--184978	64	2.0	66	90	6	210	30	14	10	44	1.80
184992--185098	54	2.0	54	98	0	205	27	12	6	54	1.62
185207--185245	12	3.2	12	88	0	60	23	25	43	7	1.80
193049--193080	16	1.9	16	93	6	55	0	15	0	84	0.63
194218--194276	29	2.0	29	96	0	109	42	8	16	32	1.79
202965--203006	1	42.0	1	100	0	84	100	0	0	0	0.00
204854--204907	26	2.1	26	96	0	99	29	12	25	31	1.93
212391--212424	16	2.1	17	94	5	61	41	0	17	41	1.50
222049--222171	59	2.1	59	96	0	228	43	18	11	26	1.84
231701--231731	2	15.5	2	100	0	62	0	48	0	51	1.00

Tables:   1

The End!