genome.fa.s9634.2.7.7.80.10.50.1000.73.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  73  of  78  ( 9351 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)
15089813--15089844	13	2.5	13	94	0	55	43	9	21	25	1.82
15097141--15097174	10	3.5	10	88	8	52	50	14	0	35	1.44
15097135--15097174	19	2.1	19	90	0	62	57	12	0	30	1.36
15097135--15097174	9	4.2	9	87	9	53	57	12	0	30	1.36
15109828--15109905	24	3.2	24	85	0	93	28	14	17	39	1.89
15109986--15110085	35	2.9	35	80	0	119	15	31	21	33	1.93
15114136--15114914	22	35.6	22	84	4	986	48	10	0	41	1.39
15114879--15114928	12	4.3	12	72	10	50	52	2	2	44	1.24
15115648--15115731	24	3.5	24	80	0	78	27	16	19	36	1.93
15117742--15117800	3	21.0	3	73	13	54	61	0	3	35	1.13
15117736--15117795	14	4.1	15	76	16	54	56	0	3	40	1.16
15117723--15117782	28	2.0	30	81	15	72	51	0	1	46	1.10
15117742--15117800	11	5.3	11	79	2	55	61	0	3	35	1.13
15118043--15118676	163	3.9	163	78	6	591	23	19	19	37	1.94
15118009--15118696	82	8.4	82	81	5	627	24	19	19	36	1.95
15124470--15124512	6	6.8	6	80	19	52	0	16	0	83	0.64
15124470--15124511	11	3.9	11	82	17	61	0	16	0	83	0.65
15124476--15124506	15	2.1	15	94	5	55	0	16	0	83	0.64
15124470--15124512	21	2.2	19	91	8	68	0	16	0	83	0.64
15129021--15129189	85	2.0	85	91	0	275	27	27	18	27	1.98
15135444--15135813	45	8.2	45	87	3	440	43	13	18	23	1.86
15138257--15138434	90	2.0	90	92	4	297	36	11	7	44	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15144993--15145166	89	2.0	89	90	2	278	36	11	7	44	1.69
15148406--15148561	65	2.4	63	84	8	199	31	22	17	28	1.96
15149419--15149446	13	2.2	13	100	0	56	60	0	0	39	0.97
15149418--15149449	16	2.0	16	93	0	55	59	0	0	40	0.97
15153876--15153937	25	2.6	23	75	14	54	3	20	1	74	1.05
15153898--15153949	7	7.1	7	76	8	50	1	15	3	78	0.98
15153898--15153949	15	3.5	15	82	12	56	1	15	3	78	0.98
15155330--15155374	20	2.2	20	96	0	81	26	24	22	26	2.00
15157782--15157827	2	23.0	2	86	8	67	47	0	2	50	1.13
15159201--15159244	21	2.1	21	87	8	63	34	34	6	25	1.82
15164624--15164675	26	2.0	26	100	0	104	30	19	19	30	1.96
15165361--15165436	31	2.5	31	79	12	84	34	26	23	15	1.95
15175657--15175707	25	2.1	25	85	7	70	60	13	11	13	1.59
15175653--15175704	22	2.4	22	81	15	63	59	13	13	13	1.61
15175696--15175728	14	2.4	14	90	10	50	78	0	21	0	0.75
15194403--15194438	17	2.1	17	89	0	54	38	0	30	30	1.58
15194720--15194754	18	1.9	18	88	11	54	0	11	2	85	0.69
15195103--15195136	11	3.1	11	86	0	50	35	0	38	26	1.57
15196767--15196861	49	1.9	49	85	6	129	34	21	27	16	1.95
15197325--15197368	22	2.0	22	86	0	61	36	34	4	25	1.76
15210689--15210755	28	2.4	27	78	9	73	62	10	14	11	1.54
15210689--15210757	27	2.5	28	77	11	79	62	10	15	11	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15215029--15215090	27	2.2	28	78	13	74	59	14	17	8	1.58
15220429--15221466	519	2.0	518	96	0	1927	27	23	13	34	1.92
15221551--15221599	24	2.0	24	92	0	80	46	8	26	18	1.76
15222778--15222909	71	1.9	71	85	0	183	34	21	25	19	1.97
15226832--15226894	27	2.3	27	94	0	108	22	20	36	20	1.95
15231551--15231604	23	2.3	23	93	0	90	14	37	14	33	1.88
15232067--15232104	19	2.0	20	89	5	60	2	10	7	78	1.04
15238180--15238212	2	16.5	2	100	0	66	48	0	0	51	1.00
15245772--15245826	22	2.4	23	90	3	85	40	9	25	25	1.85
15246226--15246384	47	3.5	45	88	4	203	33	23	5	37	1.79
15264727--15264751	11	2.3	11	100	0	50	40	8	36	16	1.77
15283259--15283296	19	2.0	19	94	0	67	57	10	18	13	1.63
15285839--15285919	39	2.1	39	92	0	135	29	19	14	35	1.92
15286512--15286593	39	2.1	39	90	0	128	29	20	15	34	1.94
15285604--15287227	674	2.4	668	92	2	2576	30	20	11	36	1.89
15290400--15290446	24	2.0	24	86	0	67	34	12	23	29	1.92
15296456--15296560	47	2.2	47	83	3	140	30	27	18	23	1.97
15297696--15297730	17	2.1	18	89	10	56	31	5	2	60	1.35
15309200--15309238	11	3.5	11	85	0	60	30	25	15	28	1.96
15309718--15309897	59	3.1	58	76	7	175	31	21	10	36	1.88
15309726--15309988	118	2.2	117	81	3	278	31	20	10	37	1.87
15310330--15310490	63	2.5	62	81	7	182	25	22	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15313754--15313811	26	2.2	27	90	6	93	8	13	15	62	1.54
15320143--15320187	6	7.2	6	85	9	63	80	2	17	0	0.82
15320143--15320185	13	3.3	12	90	6	59	81	2	16	0	0.79
15320143--15320187	19	2.4	19	92	0	72	80	2	17	0	0.82
15320150--15320187	13	2.9	14	92	7	62	81	0	18	0	0.69
15322291--15322330	21	1.9	21	84	0	53	62	7	5	25	1.42
15330000--15330036	19	1.9	19	94	0	65	43	5	13	37	1.67
15335109--15335167	25	2.3	26	80	11	68	11	16	0	71	1.15
15336464--15336524	13	4.2	14	76	17	54	60	0	27	11	1.31
15344165--15344198	18	1.9	17	88	5	50	0	11	8	79	0.94
15352456--15352502	1	47.0	1	82	0	58	0	0	8	91	0.42
15352463--15352502	9	4.6	9	96	3	73	0	0	7	92	0.38
15352449--15352499	23	2.2	24	89	3	77	1	1	9	86	0.73
15355706--15355757	23	2.3	23	83	6	61	42	5	1	50	1.37
15360948--15360993	23	2.0	22	84	12	58	21	13	0	65	1.26
15362475--15362521	19	2.4	20	92	3	78	48	6	10	34	1.63
15365001--15365058	13	4.5	13	91	0	89	29	18	17	34	1.94
15365225--15365289	2	32.5	2	100	0	130	49	0	0	50	1.00
15369500--15369537	14	2.7	14	84	8	51	42	10	28	18	1.83
15372779--15372818	19	2.1	19	85	4	53	22	17	35	25	1.95
15373541--15373578	14	2.7	14	84	8	51	42	10	28	18	1.83
15372463--15374037	799	2.0	789	91	1	2558	36	17	12	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15384024--15384063	14	2.9	14	88	0	53	45	5	27	22	1.73
15384025--15384068	21	2.1	21	86	0	61	40	6	29	22	1.80
15386408--15386453	21	2.2	20	85	11	58	30	19	6	43	1.76
15386912--15386936	11	2.3	11	100	0	50	48	36	8	8	1.62
15406940--15406984	23	2.0	23	86	8	65	35	2	13	48	1.54
15411077--15411126	22	2.3	22	96	0	91	38	20	10	32	1.85
15414409--15414534	51	2.5	51	96	0	225	34	17	20	26	1.95
15417949--15417993	19	2.3	19	84	7	54	46	15	17	20	1.84
15417907--15418035	51	2.5	51	84	0	177	41	15	17	25	1.88
15418649--15418689	22	1.9	21	85	5	55	26	4	34	34	1.78
15423158--15423198	22	1.9	21	85	5	55	26	4	34	34	1.78
15427365--15427483	51	2.3	51	94	0	202	35	15	21	26	1.94
15427365--15427497	51	2.6	50	89	4	194	36	15	21	26	1.94
15429051--15429105	28	2.0	28	96	0	101	56	5	10	27	1.56
15442579--15442630	21	2.6	21	90	6	81	34	13	5	46	1.67
15446480--15446526	21	2.3	21	85	7	62	38	12	6	42	1.69
15453215--15453240	12	2.2	12	100	0	52	26	30	11	30	1.92
15457037--15457088	21	2.7	19	78	18	54	48	3	26	21	1.67
15463755--15463797	20	2.2	20	87	4	61	34	9	6	48	1.62
15464205--15464253	19	2.5	20	78	21	59	24	8	0	67	1.18
15469464--15469519	22	2.5	22	86	8	78	12	12	16	58	1.62
15472053--15472085	13	2.5	13	95	5	57	21	27	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15477606--15477686	13	6.2	13	89	0	117	33	20	12	33	1.90
15481526--15481588	18	3.5	18	86	4	74	20	36	0	42	1.52
15481526--15481588	6	10.5	6	79	6	65	20	36	0	42	1.52
15484671--15484710	18	2.2	19	86	13	57	15	12	0	72	1.12
15484889--15484939	23	2.1	24	85	7	68	78	3	17	0	0.90
15484900--15484941	16	2.6	16	77	11	50	80	0	19	0	0.70
15484898--15484943	11	4.1	11	84	13	58	80	0	19	0	0.71
15484897--15484943	23	2.0	23	88	8	69	80	0	19	0	0.70
15484907--15484943	6	6.2	6	87	12	58	81	0	18	0	0.70
15486186--15486210	13	1.9	13	100	0	50	32	16	12	40	1.84

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   66   67   68   69   70   71   72   73   74   75   76   77   78