genome.fa.s16709.2.7.7.80.10.50.1000.1.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: AWUE01016709.1 Corchorus olitorius cultivar O-4 contig16742, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  203331

Tables:   1   

This is table  1  of  1  ( 49 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)
5782--5815	16	2.2	16	89	5	52	17	5	14	61	1.52
12448--12473	2	13.0	2	100	0	52	50	0	50	0	1.00
16014--16043	2	15.0	2	100	0	60	50	0	0	50	1.00
46765--46807	3	14.3	3	100	0	86	67	0	32	0	0.91
49216--49273	29	2.0	29	96	0	107	22	10	36	31	1.88
52896--52937	22	2.0	21	90	4	66	35	4	0	59	1.19
57231--57321	37	2.5	37	98	0	173	21	18	27	31	1.97
57231--57336	37	2.9	37	91	2	124	25	17	26	30	1.98
57955--58023	23	3.0	22	72	14	66	18	24	8	47	1.77
59230--59265	17	2.1	17	100	0	72	47	16	5	30	1.70
59288--59442	42	3.8	42	88	9	234	21	8	7	62	1.48
59288--59447	83	2.0	78	89	8	241	22	8	7	61	1.51
60668--60732	32	2.0	32	100	0	130	36	6	30	26	1.81
60801--60860	31	1.9	31	93	0	102	38	6	35	20	1.79
64132--64343	70	3.0	70	100	0	424	33	31	12	22	1.92
64328--64402	37	2.0	37	100	0	150	49	13	21	16	1.79
66355--66399	21	2.1	21	83	0	54	42	51	4	2	1.34
66478--66529	9	6.1	9	73	13	56	50	44	0	5	1.26
69821--69914	45	2.2	43	83	7	111	39	21	5	34	1.76
79660--79731	12	6.2	13	68	23	61	45	0	1	52	1.09
79669--79730	33	1.9	31	87	6	88	45	0	1	53	1.10
80075--80106	10	3.1	11	91	8	50	46	6	0	46	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80483--80520	15	2.5	15	100	0	76	39	5	26	28	1.78
80729--80807	3	26.3	3	100	0	158	65	0	0	34	0.93
82324--82395	29	2.4	30	81	2	92	23	15	15	45	1.84
89771--89823	23	2.4	22	75	15	54	37	1	0	60	1.08
95932--95963	13	2.4	14	90	10	50	78	0	21	0	0.76
99548--99593	23	2.0	23	100	0	92	47	13	8	30	1.72
100004--100038	16	2.2	16	94	0	61	51	2	0	45	1.16
101383--101417	18	1.9	18	88	11	54	17	37	20	25	1.94
104258--104294	19	2.0	19	89	5	58	35	0	0	64	0.94
104749--104788	19	2.1	19	95	0	71	30	12	17	40	1.86
119783--119808	12	2.2	12	100	0	52	92	0	7	0	0.39
130582--130632	26	2.0	26	88	0	75	23	5	11	58	1.55
138064--138117	28	1.9	28	96	0	99	42	11	7	38	1.68
140227--140275	25	2.1	23	88	11	73	10	40	16	32	1.82
152265--152357	25	3.7	25	94	4	152	11	39	17	31	1.85
159032--159283	125	2.0	125	98	0	486	40	15	12	31	1.84
160001--160528	272	1.9	274	91	1	873	38	15	18	27	1.91
163802--163827	12	2.2	12	100	0	52	0	15	15	69	1.20
166710--166744	6	5.8	6	100	0	70	34	17	31	17	1.93
173861--173926	27	2.4	27	92	5	107	13	24	28	33	1.93
178274--178304	3	10.3	3	100	0	62	0	32	0	67	0.91
179641--179703	12	5.2	12	92	0	99	19	36	0	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
179834--179897	33	1.9	33	93	0	110	26	32	0	40	1.56
187152--187195	17	2.4	19	79	20	58	61	0	36	2	1.09
194813--194855	11	3.7	11	81	6	50	0	4	16	79	0.90
194820--194869	22	2.2	23	82	7	57	2	10	20	68	1.29
196695--196824	54	2.4	56	88	2	183	20	10	23	45	1.81

Tables:   1

The End!