genome.fa.s6522.2.7.7.80.10.50.1000.1.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: VEPZ01006522.1 Hibiscus syriacus cultivar Beakdansim tig00015896_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  204148

Tables:   1   2   

This is table  1  of  2  ( 138 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)
5716--5750	15	2.3	15	90	0	52	25	65	2	5	1.28
5978--6013	18	2.0	18	88	0	54	27	55	2	13	1.52
5966--6146	75	2.5	75	88	2	260	23	49	4	22	1.69
7503--7560	16	3.0	20	73	21	70	70	1	0	27	0.97
20704--20739	19	1.9	19	88	5	56	50	8	0	41	1.33
35509--35584	36	2.1	36	85	7	100	47	1	3	47	1.29
35728--35765	20	1.9	20	88	0	58	21	26	10	42	1.85
35941--35980	16	2.6	16	88	4	55	35	20	7	37	1.81
37918--37948	16	2.0	15	93	6	53	0	16	0	83	0.64
47038--47130	20	4.6	20	83	2	78	18	18	25	37	1.93
47058--47150	20	4.6	20	83	2	123	13	20	23	41	1.88
47033--47150	61	1.9	61	96	0	218	16	19	24	38	1.92
47861--47929	19	3.5	19	69	11	66	39	21	20	18	1.93
47861--47969	41	2.6	41	92	4	175	38	22	20	18	1.93
47879--47950	22	3.4	22	69	11	69	37	25	19	18	1.94
47942--48096	20	7.7	20	78	2	157	38	24	21	15	1.92
47982--48055	21	3.6	21	75	3	87	32	27	20	20	1.97
47962--48075	41	2.8	41	95	0	210	35	26	21	16	1.95
51623--51682	2	32.5	2	78	21	69	50	0	1	48	1.11
59985--60009	13	1.9	13	100	0	50	52	0	0	48	1.00
61394--61437	2	22.0	2	100	0	88	50	0	0	50	1.00
66357--66405	25	2.0	25	100	0	98	24	16	22	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66478--66527	14	3.6	14	86	10	68	66	0	0	34	0.92
66478--66527	3	17.0	3	84	12	68	66	0	0	34	0.92
66479--66534	27	2.1	27	83	6	69	66	1	1	30	1.12
66685--67031	43	8.0	44	71	12	172	24	19	30	25	1.98
66817--67017	40	4.8	41	73	10	158	23	19	32	24	1.98
66727--67069	129	2.7	129	94	1	598	24	20	30	25	1.99
66729--67069	46	7.8	46	70	15	152	24	20	29	25	1.99
68160--68353	37	5.6	37	69	17	166	44	12	11	30	1.79
68097--68385	67	4.4	65	90	4	397	45	13	11	29	1.78
68341--68397	27	2.1	27	93	0	96	45	15	7	31	1.73
68392--68416	1	25.0	1	100	0	50	0	0	0	100	0.00
68481--68584	52	2.0	53	94	3	183	36	17	13	32	1.89
68580--68662	26	3.1	25	80	13	85	48	14	8	28	1.73
68580--68793	28	7.5	28	69	15	116	47	15	10	27	1.78
68551--68945	119	3.3	119	93	1	648	45	14	11	27	1.80
68832--68905	29	2.7	28	81	6	80	43	17	9	29	1.81
69154--69270	35	3.4	35	78	5	105	35	12	20	31	1.90
69223--69454	105	2.3	100	82	7	261	37	12	18	30	1.89
69917--69956	4	10.5	4	89	10	66	25	0	25	50	1.50
71106--71156	21	2.3	22	80	10	59	3	27	3	64	1.28
71804--71874	20	3.0	24	69	22	78	40	11	23	23	1.87
71791--71865	20	3.5	20	70	20	62	37	10	25	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
71801--71880	26	3.3	26	68	20	82	42	10	23	23	1.84
71789--71882	46	2.1	45	91	2	152	38	9	25	26	1.87
77815--77863	25	2.0	25	100	0	98	24	16	22	36	1.94
77936--77980	3	15.0	3	86	9	65	66	0	0	33	0.92
77943--77976	16	2.1	16	100	0	68	70	0	0	29	0.87
78199--78253	10	5.3	10	78	8	65	45	16	0	38	1.47
78198--78249	14	3.6	14	85	10	77	44	15	0	40	1.46
78199--78254	16	3.7	15	85	4	69	44	17	0	37	1.49
78427--78471	21	2.1	21	83	0	54	28	17	6	46	1.73
80977--81008	2	16.5	2	93	6	57	50	0	0	50	1.00
81871--81974	52	2.0	52	92	0	172	32	15	17	34	1.91
84350--84401	19	2.6	20	75	9	52	53	1	3	40	1.30
94734--94777	7	6.3	7	94	0	79	45	38	0	15	1.47
102511--102535	6	4.2	6	100	0	50	68	32	0	0	0.90
102543--102616	21	3.3	21	70	17	67	45	28	8	17	1.77
102518--102604	26	3.5	26	72	16	94	50	28	4	16	1.64
102805--102876	30	2.4	30	90	2	108	34	31	15	18	1.92
102818--102878	30	2.0	30	96	0	113	34	31	16	18	1.93
102827--102873	15	3.1	15	70	11	51	31	31	19	17	1.94
102832--102880	15	3.3	15	72	11	55	32	30	18	18	1.95
105931--105989	28	2.1	29	93	3	102	18	3	27	50	1.62
117962--117992	15	2.1	15	93	0	53	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
118146--118189	20	2.3	19	85	11	63	20	25	9	45	1.80
118152--118189	20	1.9	20	94	0	67	21	23	10	44	1.83
118851--119017	73	2.3	73	84	0	217	49	8	10	31	1.67
119479--119635	70	2.2	70	98	0	305	36	12	18	32	1.89
119668--119714	20	2.4	19	89	10	76	55	10	17	17	1.69
119550--119928	181	2.1	182	89	1	591	41	12	16	29	1.86
122106--122149	21	2.1	21	91	0	70	40	9	31	18	1.81
122182--122242	31	2.0	31	90	0	95	29	0	49	21	1.50
124024--124072	19	2.6	19	96	0	89	32	2	10	55	1.45
124185--125292	200	5.6	200	95	0	1907	36	14	18	30	1.91
124185--125292	399	2.8	400	94	0	1907	36	14	18	30	1.91
125710--125785	6	12.7	6	83	5	55	39	6	31	22	1.80
125710--125782	12	5.8	12	79	9	74	39	6	31	21	1.80
125710--125782	18	3.9	18	77	10	65	39	6	31	21	1.80
125727--125786	3	20.0	3	82	0	75	36	5	33	25	1.78
126996--127751	183	4.1	183	96	0	1368	34	14	16	33	1.89
130531--130603	23	3.2	23	92	0	119	34	5	21	38	1.77
130969--131039	23	3.2	23	88	8	110	33	5	22	38	1.78
130974--131044	21	3.3	21	90	4	97	33	5	22	38	1.78
130338--131681	463	3.0	440	86	7	1672	41	7	11	39	1.69
131453--131502	23	2.2	23	92	0	82	34	6	22	38	1.78
133546--133576	2	15.5	2	93	0	53	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137892--137940	17	2.9	17	79	11	55	57	0	2	40	1.10
138389--138717	182	1.8	182	94	0	586	39	11	8	41	1.71
139368--139407	14	2.9	14	84	0	53	30	32	27	10	1.89
139456--139547	29	3.2	29	90	0	139	25	23	34	16	1.95
142458--142484	13	2.1	13	100	0	54	22	25	14	37	1.93
142864--142890	2	13.5	2	100	0	54	51	0	0	48	1.00
143183--143249	23	3.0	23	87	6	86	16	14	14	53	1.73
146037--146169	60	2.2	60	82	4	153	36	15	14	33	1.88
157977--158001	3	8.3	3	100	0	50	0	0	32	68	0.90
160334--160781	228	2.0	227	93	3	767	44	8	7	39	1.62
160847--160892	20	2.3	19	89	10	74	54	10	17	17	1.70
161012--161059	20	2.4	20	83	13	71	52	10	16	20	1.73
163288--163352	21	3.1	21	80	6	69	40	15	29	15	1.88
163386--163450	33	2.0	33	90	3	105	29	0	47	23	1.52
165222--165270	19	2.6	19	93	0	80	30	2	10	57	1.43
165389--165885	199	2.5	198	97	0	949	37	17	15	29	1.90
166611--166735	31	4.0	31	91	2	198	36	21	20	21	1.95
166913--166959	23	2.0	24	87	4	69	31	21	2	44	1.64
167470--167513	21	2.1	21	86	0	61	15	25	27	31	1.96
170509--170633	31	4.0	31	91	2	198	36	21	20	21	1.95
171367--171410	21	2.1	21	86	0	61	15	25	27	31	1.96
172109--173380	198	6.4	198	98	0	2467	36	16	16	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
174815--174886	3	24.0	3	78	0	72	34	5	34	25	1.79
176086--176922	183	4.6	183	97	0	1561	35	14	16	33	1.90
180014--180089	23	3.5	22	78	15	68	36	7	19	35	1.81
180026--180089	23	2.8	23	87	0	92	35	6	20	37	1.78
180026--180098	23	3.2	23	82	7	85	34	5	20	39	1.76
180456--180518	23	2.8	23	85	2	83	34	6	20	38	1.78
180456--180527	23	3.2	23	80	9	76	33	5	20	40	1.76
180884--180946	23	2.7	23	85	0	81	36	7	15	39	1.77
180884--180956	23	3.2	23	82	3	76	34	6	17	41	1.76
181315--181378	23	2.8	23	87	0	92	35	6	20	37	1.78

Tables:   1   2