genome.fa.s9462.2.7.7.80.10.50.1000.89.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  89  of  91  ( 10815 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)
20109307--20109371	15	4.4	14	81	11	51	15	1	1	81	0.84
20112088--20112167	33	2.5	33	89	2	117	17	36	28	17	1.93
20120095--20120141	18	2.5	18	83	13	51	2	8	8	80	0.97
20128356--20128383	2	14.0	2	100	0	56	50	0	0	50	1.00
20132372--20132413	22	1.9	22	95	0	75	33	14	26	26	1.94
20133806--20134096	59	4.9	59	89	0	431	38	11	20	29	1.88
20158194--20158233	21	1.9	21	85	10	55	35	10	2	52	1.48
20162239--20162647	59	6.9	59	89	0	575	37	11	21	29	1.89
20168878--20169345	59	7.9	59	87	0	641	36	11	21	30	1.89
20175597--20175623	2	13.5	2	100	0	54	48	0	0	51	1.00
20176534--20176579	13	3.5	13	77	19	51	56	2	0	41	1.11
20176534--20176711	18	9.3	18	72	17	112	50	3	2	43	1.35
20176563--20176613	9	5.7	9	73	17	52	50	5	0	43	1.26
20176608--20176747	26	5.5	26	70	17	89	46	3	5	44	1.44
20176565--20176760	100	2.0	99	90	4	315	47	4	4	43	1.44
20176699--20176849	15	10.3	14	70	14	74	47	3	5	43	1.44
20176736--20176858	2	63.0	2	66	22	57	50	3	3	43	1.34
20176708--20176779	28	2.6	26	84	8	81	44	5	6	43	1.54
20176733--20176782	13	3.6	15	89	5	63	50	8	4	38	1.51
20176753--20176800	24	2.0	25	87	4	71	50	4	6	39	1.47
20176778--20176905	38	3.4	38	72	14	102	49	1	3	45	1.30
20176777--20176858	9	9.2	9	70	19	57	51	1	2	45	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20176753--20176906	76	2.0	75	83	3	193	48	2	3	44	1.34
20176795--20176865	18	3.5	20	76	21	69	54	1	0	43	1.08
20176988--20177025	7	5.4	7	100	0	76	15	0	39	44	1.47
20177852--20177889	17	2.2	18	85	4	51	28	13	21	36	1.91
20179029--20179053	3	8.3	3	100	0	50	32	0	68	0	0.90
20184545--20184584	21	1.9	21	85	10	55	35	10	2	52	1.48
20186552--20186639	45	1.9	46	90	2	142	28	18	25	28	1.98
20187126--20187170	19	2.3	20	92	3	74	20	40	0	40	1.52
20187586--20187627	20	2.2	20	86	4	59	40	0	33	26	1.56
20188382--20188442	16	3.8	16	86	2	77	44	11	22	21	1.84
20188382--20188442	32	1.9	32	86	0	86	44	11	22	21	1.84
20188944--20188993	18	2.9	17	91	5	82	42	6	22	30	1.77
20189319--20189933	253	2.4	257	86	9	832	40	19	12	27	1.87
20190269--20190309	21	2.0	21	95	0	73	41	12	0	46	1.41
20191171--20191254	2	42.0	2	100	0	168	50	0	0	50	1.00
20193298--20193527	31	7.4	31	89	1	318	37	9	13	38	1.78
20207488--20207594	45	2.4	45	82	4	126	31	20	17	29	1.96
20207564--20207612	19	2.6	19	84	9	57	24	28	20	26	1.99
20213391--20213509	23	5.4	22	72	7	89	30	21	23	24	1.99
20213387--20213509	44	2.8	43	90	1	174	29	21	24	24	1.99
20213387--20213487	21	4.7	21	73	6	85	28	22	24	23	1.99
20215052--20215095	21	2.1	21	82	0	52	9	38	15	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20216191--20216297	45	2.4	45	85	4	135	28	21	17	31	1.96
20218000--20218024	12	2.1	12	100	0	50	48	32	12	8	1.69
20218634--20218703	34	2.1	32	89	5	104	21	31	15	31	1.95
20218986--20219027	21	2.0	21	95	0	75	26	28	21	23	1.99
20219192--20219281	31	3.0	31	96	3	166	43	17	5	33	1.73
20224354--20224408	3	18.3	3	100	0	110	34	0	0	65	0.93
20226486--20226709	30	7.5	30	83	5	229	16	25	32	26	1.96
20232796--20232929	70	1.9	69	80	8	155	40	3	6	49	1.47
20237119--20237161	22	2.0	22	81	9	52	30	0	9	60	1.28
20239036--20239082	18	2.5	20	76	10	55	51	4	21	23	1.65
20239278--20239368	32	3.0	30	84	7	112	24	19	23	32	1.97
20239548--20239668	36	3.2	36	66	17	100	29	3	20	46	1.67
20239504--20239663	78	2.0	79	96	1	295	28	3	20	46	1.68
20241294--20241322	14	2.0	15	93	6	51	27	13	10	48	1.75
20246082--20246166	32	2.7	32	83	0	98	31	11	24	31	1.91
20255072--20255110	2	19.5	2	100	0	78	51	0	0	48	1.00
20260027--20260055	15	2.0	15	93	6	51	27	13	13	44	1.82
20263382--20263452	33	2.1	34	84	2	90	35	21	7	36	1.80
20263938--20264035	35	2.9	34	75	13	112	31	18	13	36	1.89
20263942--20264059	32	3.7	31	72	21	93	30	19	13	36	1.90
20263939--20264065	67	2.0	65	87	7	188	30	18	13	37	1.90
20278224--20278262	2	19.0	2	89	5	60	48	2	2	46	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20278943--20278971	14	2.0	15	93	6	51	6	3	27	62	1.37
20279251--20279304	24	2.2	24	96	0	99	38	0	40	20	1.53
20279717--20279824	45	2.4	46	85	4	139	27	18	20	33	1.96
20295248--20295294	24	2.0	24	86	0	67	63	6	6	23	1.41
20301487--20301565	23	3.7	21	83	8	88	29	17	17	35	1.93
20301926--20301964	16	2.3	18	86	8	55	7	0	28	64	1.21
20302545--20302598	20	2.7	20	100	0	108	27	25	14	31	1.95
20311170--20311207	20	1.9	19	89	5	58	23	5	5	65	1.34
20315550--20315709	65	2.5	65	83	7	202	28	17	22	31	1.97
20315550--20315750	65	3.1	63	76	11	194	27	17	22	31	1.97
20332348--20332576	80	2.8	80	88	5	336	31	23	9	35	1.87
20332348--20332602	81	3.2	80	88	3	352	30	22	10	36	1.87
20332709--20333119	57	7.3	57	90	1	609	36	18	11	33	1.87
20333876--20335578	853	2.0	853	95	0	3059	37	19	9	33	1.84
20336031--20336112	2	43.0	2	71	18	50	41	4	0	53	1.22
20336031--20336112	17	4.8	17	72	14	51	41	4	0	53	1.22
20341324--20341353	12	2.5	12	100	0	60	26	23	20	30	1.98
20346859--20346938	23	3.6	23	73	10	67	31	22	20	26	1.98
20346876--20346939	21	2.9	22	79	4	76	34	21	18	25	1.96
20348826--20348883	27	2.1	27	84	6	73	25	3	13	56	1.53
20349518--20349618	46	2.2	46	82	7	116	30	19	16	32	1.95
20349683--20349738	21	2.7	21	100	0	112	25	28	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20357030--20357088	9	7.0	8	78	16	57	37	3	0	59	1.14
20357037--20357086	11	4.5	11	78	11	57	36	4	0	60	1.16
20365837--20366070	100	2.3	100	92	1	389	32	15	19	33	1.93
20365937--20366163	119	1.9	120	91	0	375	33	15	17	33	1.91
20367655--20367706	22	2.6	20	78	21	56	34	7	0	57	1.27
20368468--20368527	29	2.1	29	87	0	84	48	6	10	35	1.63
20372110--20372387	140	2.0	140	97	0	529	31	16	23	28	1.96
20377211--20377450	122	2.0	123	90	2	385	25	20	20	33	1.97
20377816--20377997	95	1.9	95	84	8	242	42	13	14	30	1.83
20384392--20384434	22	2.0	22	86	9	61	62	18	11	6	1.50
20384959--20385005	24	2.0	24	87	8	69	48	0	21	29	1.50
20386091--20386213	17	7.1	17	76	12	117	38	8	14	38	1.78
20386205--20386250	17	2.7	17	79	0	56	43	13	15	28	1.83
20389879--20389999	17	7.1	17	73	7	93	38	9	14	37	1.80
20389991--20390045	17	3.2	17	73	0	56	45	10	12	30	1.77
20390610--20390656	21	2.3	21	85	3	60	44	17	12	25	1.84
20393327--20393420	49	1.9	49	91	0	152	41	18	5	35	1.73
20397236--20398124	176	4.7	179	84	8	903	30	15	13	40	1.86
20397756--20397797	19	2.2	20	91	4	68	30	21	11	35	1.90
20397414--20398317	197	4.6	197	86	3	1138	30	15	13	40	1.85
20397110--20398317	393	3.2	389	84	7	1295	30	15	13	40	1.86
20398928--20398992	26	2.5	26	100	0	130	47	15	10	26	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20399369--20399413	23	2.0	23	90	0	72	51	6	22	20	1.70
20400062--20400094	15	2.1	17	88	11	52	57	12	18	12	1.64
20408486--20408519	12	2.8	12	90	0	50	52	20	0	26	1.46
20409518--20409574	20	2.9	20	81	2	62	36	15	15	31	1.90
20409531--20409588	20	2.9	20	84	0	71	34	20	18	25	1.96
20409635--20409675	20	2.0	20	85	0	55	41	17	9	31	1.82
20412420--20412460	20	2.0	20	85	0	55	31	17	17	34	1.93
20426844--20426958	9	11.9	9	75	14	70	76	0	16	6	0.99
20426851--20426942	19	4.6	20	79	12	100	77	0	16	6	0.97
20426880--20426932	23	2.3	23	90	3	81	77	0	15	7	0.98

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   79   80   
          81   82   83   84   85   86   87   88   89   90   91