genome.fa.s6093.2.7.7.80.10.50.1000.13.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: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3172561

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  13  of  13  ( 1555 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)
2754786--2754904	61	2.0	61	83	3	150	38	19	15	26	1.91
2756350--2756432	30	2.9	29	83	7	107	25	30	13	31	1.93
2756348--2756430	27	2.9	29	82	8	107	26	30	12	31	1.92
2763754--2763797	21	2.2	20	83	4	52	4	15	4	75	1.14
2763760--2763802	21	2.0	22	86	8	63	4	13	2	79	1.00
2763760--2763802	20	2.1	21	86	4	61	4	13	2	79	1.00
2765887--2765943	28	2.1	26	83	6	69	59	15	15	8	1.59
2775680--2776050	185	2.0	185	100	0	742	45	10	17	27	1.80
2781564--2781617	22	2.5	22	81	0	63	27	24	16	31	1.96
2784275--2784306	16	2.1	16	88	11	50	34	3	0	62	1.11
2787849--2787903	23	2.3	25	81	6	69	61	10	18	9	1.54
2789121--2789175	24	2.3	25	81	6	60	32	16	21	29	1.95
2791744--2791798	23	2.3	25	84	6	78	60	12	18	9	1.58
2793010--2793064	24	2.3	25	81	6	60	32	16	21	29	1.95
2799148--2799200	13	3.8	13	74	13	52	1	20	3	73	1.08
2799143--2799202	21	2.9	21	79	16	72	1	21	3	73	1.07
2799140--2799206	29	2.3	30	79	10	84	1	20	2	74	1.03
2815425--2815472	11	4.7	11	78	17	50	0	12	10	77	1.00
2815426--2815463	19	2.0	19	89	0	58	0	7	13	78	0.94
2815445--2815474	12	2.6	12	94	5	53	0	10	6	83	0.81
2815427--2815470	19	2.2	20	84	4	54	0	11	11	77	1.00
2819908--2819963	25	2.3	25	82	11	64	14	14	14	57	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2826927--2827312	193	2.0	192	98	1	747	34	17	23	24	1.96
2828719--2828785	32	2.1	32	100	0	134	34	11	20	32	1.90
2833636--2833673	17	2.4	17	86	8	53	31	5	0	63	1.17
2834862--2834901	9	4.2	10	84	9	57	22	0	35	42	1.54
2834865--2834902	19	2.0	19	100	0	76	26	0	31	42	1.56
2841909--2841946	18	2.1	18	90	0	58	31	36	10	21	1.87
2841664--2841931	135	2.0	134	98	1	520	24	27	12	34	1.92
2842681--2842717	15	2.5	15	90	0	65	8	29	0	62	1.24
2844019--2844134	59	2.0	58	94	1	205	34	12	14	38	1.83
2844549--2844581	11	3.0	11	95	0	57	54	15	18	12	1.71
2845321--2845426	50	2.3	47	84	14	132	50	13	1	33	1.52
2848252--2848294	23	1.9	21	81	13	50	34	13	18	32	1.90
2852252--2852294	23	1.9	21	81	13	50	34	13	18	32	1.90
2853501--2853532	5	6.6	5	96	3	57	0	15	0	84	0.63
2854799--2854841	23	1.9	21	81	13	50	34	13	18	32	1.90
2856048--2856081	10	3.3	10	87	4	50	0	11	2	85	0.71
2859765--2859868	33	3.1	33	82	9	95	30	36	1	30	1.69
2864240--2864319	35	2.3	33	83	10	90	31	37	2	28	1.71
2870308--2870346	19	2.1	19	95	0	69	20	38	15	25	1.92
2870294--2870456	65	2.5	65	82	3	204	30	25	15	28	1.96
2876253--2876308	22	2.7	21	83	10	62	30	23	17	28	1.97
2877011--2877074	21	3.0	21	77	4	67	21	42	6	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2877871--2877914	21	2.1	21	91	0	70	6	36	15	40	1.74
2878909--2878947	19	2.1	19	95	0	69	20	38	15	25	1.92
2878895--2879054	65	2.5	65	83	7	209	29	26	16	27	1.97
2898078--2898104	9	3.0	9	100	0	54	22	11	11	55	1.66
2902908--2902967	30	2.0	31	83	3	77	26	8	10	55	1.61
2903475--2903513	10	3.7	10	90	10	60	25	10	43	20	1.83
2903887--2903937	19	2.6	20	84	3	68	33	15	5	45	1.71
2907750--2907788	10	3.7	10	90	10	60	25	10	43	20	1.83
2908162--2908208	19	2.3	20	85	7	60	38	14	6	40	1.72
2915154--2915200	24	2.0	23	84	16	60	76	4	17	2	1.04
2930979--2931013	16	2.1	17	94	5	63	20	11	0	68	1.20
2942463--2942531	26	2.7	26	100	0	138	24	18	37	18	1.94
2944243--2944285	23	1.9	21	81	13	50	34	13	18	32	1.90
2945513--2945568	24	2.3	24	78	6	69	10	10	17	60	1.57
2947473--2947511	11	3.5	11	80	13	53	28	5	33	33	1.79
2947467--2947518	22	2.4	22	100	0	104	25	3	38	32	1.74
2947486--2947569	36	2.3	37	89	6	127	30	2	35	30	1.71
2947467--2947524	22	2.6	22	94	2	89	29	3	36	31	1.74
2963071--2963130	24	2.6	23	89	2	84	35	25	18	21	1.96
2963075--2963142	24	2.9	23	84	4	82	36	22	20	20	1.95
2979141--2979184	16	2.6	17	85	10	63	68	0	18	13	1.22
2979141--2979189	16	2.9	16	87	6	62	65	0	20	14	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2997884--2997938	23	2.4	24	84	6	69	7	16	12	63	1.50
3003421--3003457	15	2.4	16	90	4	58	18	10	0	70	1.16
3003416--3003460	15	2.8	16	80	10	56	20	11	0	68	1.19
3009922--3011088	389	3.0	389	97	0	2228	31	15	13	39	1.87
3019322--3019375	11	5.4	10	75	20	51	0	18	1	79	0.82
3019322--3019376	19	2.8	19	82	17	69	0	18	3	78	0.90
3023476--3023528	25	2.2	24	81	15	58	18	7	1	71	1.19
3023872--3023926	18	3.3	18	75	19	64	76	14	9	0	1.02
3023876--3023910	14	2.4	14	90	4	52	80	11	8	0	0.92
3023873--3023919	22	2.1	22	88	7	69	80	10	8	0	0.89
3023896--3023926	9	3.4	9	90	0	53	74	16	9	0	1.07
3029593--3029641	16	2.9	16	87	6	62	63	0	20	16	1.31
3029681--3029791	54	2.1	54	98	0	213	29	18	13	37	1.90
3029828--3029859	15	2.1	16	88	11	50	0	18	0	81	0.70
3049838--3049917	35	2.2	37	91	4	128	27	3	37	31	1.74
3055496--3055574	35	2.2	37	90	4	126	27	3	36	31	1.75
3061035--3061097	25	2.5	25	84	0	99	42	31	1	23	1.64
3068390--3068426	11	3.4	11	84	0	56	0	5	8	86	0.70
3068383--3068426	20	2.2	20	84	8	54	4	6	6	81	0.97
3068389--3068427	20	2.0	20	90	10	62	0	7	10	82	0.86
3069173--3069206	16	2.1	17	89	10	54	70	5	0	23	1.09
3070327--3070376	24	2.1	24	88	0	73	52	18	14	16	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3076297--3076352	13	4.2	13	80	13	60	78	1	17	1	0.92
3083031--3083081	19	2.6	20	90	3	77	43	5	15	35	1.71
3087230--3087280	19	2.6	20	90	3	77	43	5	15	35	1.71
3088209--3088253	20	2.2	20	84	8	54	62	6	2	28	1.33
3089807--3089865	6	10.5	6	76	10	54	3	16	1	77	0.98
3089807--3089865	11	5.3	11	76	15	59	3	16	1	77	0.98
3090117--3090161	17	2.6	19	83	16	55	64	0	17	17	1.29
3090581--3090635	19	2.7	20	88	8	76	47	5	12	34	1.65
3090545--3090712	80	2.1	79	94	1	291	39	11	16	32	1.84
3090661--3090712	19	2.6	19	84	6	68	46	7	11	34	1.69
3090661--3090710	21	2.5	21	87	6	68	48	8	10	34	1.66
3095389--3095420	16	2.1	16	88	11	50	34	3	0	62	1.11
3105150--3105181	17	1.9	17	93	6	57	0	15	6	78	0.95
3106739--3106782	2	22.5	2	90	4	72	50	0	2	47	1.13
3109224--3109262	20	1.9	21	89	5	62	30	2	33	33	1.72
3110312--3110374	26	2.5	25	79	20	69	6	17	6	69	1.31
3110629--3110678	19	2.6	20	84	12	61	64	0	12	24	1.27
3114251--3114278	8	3.5	8	100	0	56	0	21	0	78	0.75
3114242--3114286	16	2.9	15	78	21	56	0	20	2	77	0.87
3114542--3114591	19	2.6	20	84	12	61	64	0	12	24	1.27
3118355--3118409	19	2.8	19	82	17	69	78	3	18	0	0.90
3127537--3127587	20	2.6	20	90	3	77	35	15	5	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3137962--3138012	20	2.6	20	90	3	77	35	15	5	43	1.71
3142978--3143251	130	2.1	131	95	1	487	12	14	14	58	1.64
3148794--3148839	23	2.0	23	83	8	58	36	6	8	47	1.60
3163329--3163371	20	2.2	20	91	4	70	37	9	4	48	1.56
3166047--3166076	13	2.4	13	94	5	53	26	30	0	43	1.55

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13

The End!