genome.fa.s7984.2.7.7.80.10.50.1000.16.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  16  of  65  ( 7696 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)
3195288--3195406	40	3.0	38	78	9	105	43	4	3	48	1.38
3198702--3198732	12	2.6	12	94	0	53	70	3	3	22	1.16
3199753--3199786	17	1.9	18	88	5	52	67	0	14	17	1.23
3199775--3199821	16	2.9	17	78	9	53	68	0	12	19	1.21
3199820--3199898	35	2.3	35	95	0	140	65	0	8	25	1.21
3199855--3199947	45	2.0	47	87	8	138	66	0	7	25	1.18
3199911--3199966	26	2.3	26	78	9	64	62	0	10	26	1.28
3200974--3201016	18	2.4	18	84	3	61	72	2	4	20	1.14
3200976--3201056	14	6.2	13	72	14	53	69	2	1	27	1.09
3200999--3201055	17	3.3	18	81	18	68	66	1	0	31	1.02
3201000--3201055	23	2.5	23	85	8	71	66	1	0	32	1.03
3200997--3201039	14	3.1	14	90	9	63	67	0	0	32	0.91
3200999--3201068	14	5.3	13	76	11	54	65	2	0	31	1.07
3201053--3201155	36	2.8	37	78	10	104	46	8	3	40	1.53
3201054--3201303	38	6.8	37	79	10	201	44	10	3	42	1.54
3201054--3201305	37	6.8	37	75	16	184	44	9	3	42	1.53
3202264--3202289	3	8.7	3	100	0	52	34	65	0	0	0.93
3202288--3202365	3	26.0	3	100	0	156	33	33	0	33	1.58
3204432--3204509	30	2.6	29	90	8	120	23	10	11	55	1.66
3218576--3218622	23	2.0	23	84	12	60	57	8	0	34	1.29
3219395--3219481	40	2.2	40	100	0	174	32	16	20	31	1.94
3221530--3221621	42	2.2	42	92	1	150	50	4	3	42	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3221531--3221606	15	5.3	15	68	15	52	52	3	2	40	1.34
3222625--3223043	217	1.9	216	92	0	694	41	18	15	25	1.89
3223313--3223359	17	2.6	18	76	6	51	29	0	4	65	1.11
3223800--3223939	69	2.0	69	92	0	235	47	17	9	25	1.77
3225230--3225268	19	2.1	19	85	4	53	43	23	10	23	1.84
3225434--3225509	38	2.0	38	92	0	125	27	11	22	38	1.89
3225430--3225498	21	3.5	21	68	22	58	28	11	20	39	1.87
3232613--3232652	20	2.0	20	95	0	71	37	30	10	22	1.87
3237568--3237623	3	18.7	3	78	7	60	57	0	5	37	1.22
3237570--3237630	20	3.2	19	82	11	72	59	0	4	36	1.19
3237570--3237623	11	4.8	11	80	11	56	57	0	5	37	1.22
3240971--3241008	20	2.0	20	89	5	60	60	13	0	26	1.33
3241485--3241630	66	2.2	66	92	0	238	21	23	11	42	1.86
3241534--3241676	20	6.6	20	74	17	124	22	25	9	43	1.82
3241454--3241564	46	2.4	46	86	3	152	25	19	9	45	1.81
3241472--3241676	112	1.8	112	92	0	347	23	22	10	43	1.83
3241551--3241689	46	3.0	46	92	0	233	23	22	10	43	1.83
3242119--3242163	18	2.5	18	96	0	81	24	31	13	31	1.93
3242193--3242308	44	2.6	45	81	8	132	25	25	12	36	1.92
3242189--3242263	20	3.5	20	75	16	62	24	25	13	37	1.91
3242993--3243025	2	16.5	2	100	0	66	51	0	0	48	1.00
3248554--3248754	26	8.4	26	70	21	109	26	21	8	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3248579--3248881	46	6.6	46	89	0	462	24	20	10	44	1.83
3248528--3248664	72	1.9	72	86	3	195	26	19	8	45	1.79
3252230--3252278	24	2.0	24	100	0	98	42	12	12	32	1.79
3255765--3255802	19	2.0	19	90	10	60	0	18	0	81	0.69
3259083--3259131	24	2.0	24	100	0	98	42	12	12	32	1.79
3261329--3261364	2	18.0	2	94	0	63	47	0	2	50	1.15
3262481--3262549	30	2.3	30	82	5	77	37	15	13	33	1.86
3272116--3272161	24	1.9	24	81	0	56	19	19	19	41	1.91
3274736--3274762	12	2.2	12	100	0	54	22	14	37	25	1.93
3275610--3275643	18	1.9	18	88	5	52	17	23	23	35	1.95
3284623--3284662	21	1.9	21	85	10	55	30	10	7	52	1.62
3286139--3286231	21	4.6	20	78	4	96	38	18	24	18	1.92
3286136--3286231	41	2.3	41	98	0	183	39	17	23	18	1.92
3286139--3286231	20	4.6	20	78	4	96	38	18	24	18	1.92
3286220--3286313	20	4.7	20	77	2	80	35	24	17	23	1.95
3286217--3286294	41	1.9	41	83	0	102	41	21	15	21	1.90
3286833--3286897	19	3.4	19	84	2	76	44	26	18	10	1.82
3286893--3287077	19	10.1	19	76	14	165	12	21	22	43	1.86
3286893--3286982	39	2.3	38	92	1	144	12	18	22	46	1.82
3286965--3287052	33	2.6	33	90	1	131	11	23	25	39	1.88
3287020--3287077	20	2.9	20	80	10	64	13	24	18	43	1.87
3289079--3289201	42	2.9	42	80	2	122	22	36	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3289135--3289201	21	3.2	21	66	6	55	23	35	20	19	1.95
3290553--3290588	14	2.6	14	95	0	63	30	0	25	44	1.54
3290695--3290748	20	2.8	19	91	5	90	46	20	20	12	1.83
3290753--3290870	19	6.7	19	66	19	76	13	23	20	42	1.88
3290757--3290850	33	2.8	33	98	0	179	12	24	19	43	1.85
3294511--3294583	14	4.5	15	74	22	60	13	20	19	46	1.83
3294507--3294573	18	3.8	19	83	16	92	13	22	17	46	1.83
3294690--3294726	14	2.6	14	86	0	56	48	21	0	29	1.50
3295146--3295199	14	3.5	14	77	22	63	11	20	20	48	1.80
3295141--3295218	33	2.4	33	91	0	120	12	23	21	42	1.87
3295306--3295342	14	2.6	14	86	0	56	48	21	0	29	1.50
3294269--3295591	616	2.1	621	96	2	2449	35	19	12	32	1.89
3297266--3297323	14	3.9	14	79	16	71	48	25	17	8	1.75
3297250--3297340	32	2.8	33	94	3	166	47	23	18	10	1.80
3297192--3297345	19	8.6	19	73	17	114	42	24	20	12	1.87
3297357--3297446	14	5.9	14	72	19	72	10	17	24	47	1.78
3297352--3297462	32	3.4	32	88	3	161	10	18	23	46	1.80
3297447--3297501	20	2.8	19	83	8	65	16	23	23	36	1.94
3297974--3298018	18	2.5	18	85	0	63	15	15	42	26	1.87
3300165--3300279	20	5.7	20	76	5	79	23	16	23	36	1.94
3300268--3300363	41	2.3	41	98	0	147	18	23	17	39	1.92
3300268--3300360	20	4.6	20	78	4	96	18	24	18	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3305055--3305098	23	2.0	21	86	8	61	22	0	2	75	0.92
3307655--3307694	20	2.0	20	85	0	53	55	2	0	42	1.13
3309480--3309639	65	2.5	65	87	3	216	27	18	23	31	1.97
3309655--3309699	20	2.2	20	92	0	72	22	15	28	33	1.95
3310034--3310085	22	2.4	22	80	3	70	21	42	0	36	1.53
3310417--3310588	20	8.6	19	74	12	98	35	24	15	25	1.94
3310498--3310589	19	4.7	20	84	8	89	39	25	14	21	1.91
3310498--3310588	40	2.3	40	84	5	114	38	25	14	21	1.91
3311334--3311367	12	2.8	12	90	0	50	55	29	0	14	1.40
3313800--3313840	18	2.3	18	91	0	64	53	26	2	17	1.56
3314122--3314194	20	4.0	20	67	20	68	38	20	21	19	1.94
3314159--3314197	20	2.0	20	94	0	69	38	23	20	17	1.93
3314210--3314260	20	2.5	20	87	0	66	15	15	27	41	1.88
3315041--3315127	39	2.2	39	93	0	147	49	19	14	16	1.80
3315303--3315345	20	2.2	20	91	0	68	44	23	16	16	1.86
3315354--3315463	20	5.8	20	69	12	97	19	19	21	40	1.92
3315522--3315660	61	2.2	62	86	6	183	51	16	0	31	1.50
3317035--3317133	21	4.7	21	73	13	78	24	19	32	24	1.97
3317046--3317133	42	2.1	42	82	4	106	23	17	35	23	1.95
3319288--3319332	20	2.2	20	92	0	72	53	20	17	8	1.70
3319820--3320064	20	12.2	20	82	9	227	19	17	24	38	1.93
3319820--3320019	60	3.3	61	83	7	259	19	17	24	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3326858--3327017	65	2.5	65	84	5	209	28	17	21	31	1.96
3327721--3327824	52	2.0	52	88	3	156	25	24	11	38	1.89
3333048--3333162	51	2.3	51	87	3	160	35	3	10	50	1.54
3335179--3335210	14	2.1	16	88	11	50	40	0	0	59	0.97
3336586--3336628	7	6.0	7	82	15	52	46	0	0	53	1.00
3336592--3336628	9	3.9	9	86	13	56	45	0	0	54	1.00
3337262--3337301	19	2.1	19	100	0	80	37	10	10	42	1.72
3337265--3337307	19	2.3	19	91	0	68	37	11	6	44	1.68
3341022--3341080	30	2.0	29	86	3	82	38	8	20	32	1.83
3355683--3355766	3	27.7	3	82	7	89	38	1	0	60	1.04

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65