genome.fa.s9462.2.7.7.80.10.50.1000.85.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  85  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)
19212317--19212414	2	52.5	2	69	20	61	46	2	1	50	1.19
19212324--19212419	40	2.3	42	83	7	115	44	2	1	52	1.19
19215043--19215086	20	2.2	20	87	0	61	20	18	18	43	1.89
19216357--19216400	20	2.3	19	84	11	54	79	2	11	6	1.01
19216354--19216430	16	4.6	17	76	16	72	79	1	12	6	0.99
19216366--19216446	25	3.2	24	77	16	76	77	2	16	3	1.01
19216606--19216655	25	2.0	25	84	0	64	40	8	20	32	1.81
19218665--19218752	43	2.0	43	100	0	176	22	18	23	35	1.96
19222055--19222107	23	2.3	23	86	0	70	28	20	18	32	1.97
19229710--19229740	11	2.8	11	95	0	53	25	12	19	41	1.87
19240225--19240360	65	2.1	64	84	4	175	29	17	22	30	1.97
19241055--19241089	16	2.2	16	89	0	52	54	28	0	17	1.43
19242729--19242825	23	4.5	22	75	8	92	26	21	26	24	1.99
19242772--19242844	21	3.4	21	72	9	58	21	23	26	28	1.99
19242749--19242844	44	2.2	43	85	5	122	23	21	26	28	1.99
19244655--19244736	22	3.9	22	75	7	82	23	20	26	29	1.99
19248554--19248604	21	2.5	20	77	3	57	33	7	3	54	1.47
19250549--19250684	65	2.1	64	89	4	202	29	17	23	29	1.97
19254573--19254679	56	1.9	56	86	0	151	43	5	8	42	1.58
19255328--19255361	17	2.0	17	100	0	68	52	11	5	29	1.61
19255766--19255827	30	2.1	30	100	0	124	30	25	19	24	1.98
19256574--19256607	18	1.9	18	88	5	52	32	0	2	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19256561--19256625	27	2.4	28	80	14	73	40	0	1	58	1.07
19257625--19257685	30	2.0	30	90	0	95	29	24	21	24	1.99
19258433--19258466	18	1.9	18	88	5	52	32	0	2	64	1.08
19258427--19258497	28	2.5	27	80	11	72	43	1	1	53	1.18
19259462--19259521	30	2.0	29	93	3	102	31	26	18	23	1.97
19275497--19275580	21	4.0	21	89	4	125	29	27	17	25	1.98
19275555--19275612	30	1.9	30	89	0	89	34	25	13	25	1.93
19284446--19284482	17	2.2	17	90	9	58	56	0	0	43	0.99
19284644--19285308	114	5.8	114	83	3	714	32	14	22	31	1.94
19287101--19287164	29	2.2	29	100	0	128	40	25	21	12	1.88
19289621--19289661	11	3.7	11	96	0	73	31	9	31	26	1.89
19290524--19290562	20	2.0	20	89	0	60	30	33	15	20	1.94
19290582--19290680	45	2.2	46	81	3	130	25	26	19	29	1.98
19290691--19290733	19	2.4	18	80	7	52	20	27	20	30	1.98
19297569--19297659	45	2.0	46	91	2	148	27	25	19	27	1.99
19300866--19300894	5	5.8	5	100	0	58	62	0	0	37	0.96
19301378--19301468	46	2.0	46	95	2	166	27	26	18	27	1.98
19301481--19301529	19	2.6	19	87	9	66	24	28	18	28	1.98
19307280--19307360	24	3.5	24	70	20	75	22	24	23	29	1.99
19309713--19309804	45	2.0	46	89	2	141	31	25	16	27	1.96
19311561--19311611	11	4.8	11	77	18	54	52	0	1	45	1.12
19312409--19312439	14	2.2	14	94	0	53	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19314424--19314535	34	3.2	34	85	3	134	46	8	0	43	1.41
19314434--19314547	34	3.2	35	76	7	106	43	7	0	48	1.36
19314539--19314563	2	12.5	2	100	0	50	48	0	0	52	1.00
19314498--19314601	54	2.0	51	86	5	145	42	6	2	48	1.44
19314549--19314640	38	2.4	38	87	5	125	42	10	4	42	1.59
19314459--19314682	124	1.8	120	79	12	258	43	9	3	44	1.52
19314659--19314704	21	2.0	24	84	12	62	41	8	0	50	1.33
19315245--19315739	85	5.8	85	89	0	765	24	18	21	35	1.96
19315245--19315739	171	2.9	170	90	0	792	24	18	21	35	1.96
19321996--19322148	37	4.3	36	80	7	118	43	7	2	45	1.46
19321983--19322231	40	6.7	35	76	14	173	42	8	3	44	1.53
19322021--19322189	34	4.7	34	75	12	126	43	8	2	45	1.46
19321988--19322147	32	4.6	33	78	10	108	44	7	2	45	1.45
19322268--19322354	37	2.3	38	84	9	108	42	2	2	52	1.26
19322341--19322387	2	24.0	2	95	4	87	48	0	0	51	1.00
19323224--19323303	27	2.9	26	69	14	63	38	2	1	57	1.20
19323518--19323622	51	2.0	53	80	9	117	42	11	2	42	1.55
19323781--19323838	21	2.6	22	83	8	73	48	3	5	43	1.42
19323824--19323863	20	1.9	22	90	10	66	60	2	5	32	1.32
19327316--19327356	21	2.0	21	95	0	73	51	24	4	19	1.66
19333677--19334492	165	5.0	165	89	1	1181	29	25	20	24	1.99
19335023--19335306	37	7.8	36	79	12	253	46	3	4	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19334980--19335306	39	8.9	37	79	11	300	45	4	5	44	1.47
19335333--19335358	13	2.0	13	100	0	52	23	7	0	69	1.14
19336441--19336490	12	3.9	13	80	17	52	16	6	0	78	0.95
19336445--19336486	17	2.5	17	88	0	57	14	4	0	80	0.86
19339270--19339477	57	3.6	57	78	3	202	42	5	15	37	1.70
19339569--19339612	23	1.9	23	90	0	70	22	18	25	34	1.96
19339573--19339662	46	1.9	47	80	14	107	24	24	22	28	1.99
19344456--19344494	19	2.0	20	85	5	53	43	5	23	28	1.75
19345432--19345459	14	2.0	14	100	0	56	42	7	21	28	1.79
19346987--19347015	2	14.5	2	100	0	58	51	0	0	48	1.00
19347144--19347187	19	2.3	19	88	7	63	70	2	2	25	1.10
19348228--19348261	12	2.8	12	90	4	50	32	5	0	61	1.20
19351159--19351197	17	2.3	17	90	0	60	7	7	25	58	1.52
19351257--19351339	24	3.5	24	80	5	87	21	13	19	45	1.84
19351270--19351344	23	3.1	24	78	5	80	24	16	18	41	1.90
19352070--19352125	27	2.1	27	100	0	112	42	33	7	16	1.75
19352203--19352253	26	1.9	27	92	4	86	43	19	13	23	1.87
19375787--19375850	20	3.2	20	84	4	76	39	17	17	26	1.91
19384126--19384234	49	2.2	49	85	1	155	27	11	22	37	1.90
19384467--19384528	24	2.6	25	87	5	83	30	4	0	64	1.14
19384673--19384714	19	2.3	19	84	8	52	35	2	2	59	1.23
19385697--19385871	90	2.0	89	90	1	278	36	12	6	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19390613--19390655	20	2.2	20	95	0	77	39	18	6	34	1.78
19399730--19399767	18	2.1	18	95	0	67	21	21	31	26	1.98
19399733--19399773	18	2.4	16	85	14	64	17	24	29	29	1.97
19401233--19401257	4	6.2	4	100	0	50	24	0	0	76	0.80
19401258--19401286	3	9.7	3	100	0	58	65	0	0	34	0.93
19402683--19402725	17	2.6	17	82	7	54	32	4	0	62	1.15
19402897--19402951	23	2.3	26	81	12	73	41	3	0	54	1.18
19406788--19406819	15	2.1	15	94	0	55	28	18	6	46	1.73
19414142--19414166	10	2.5	10	100	0	50	92	0	8	0	0.40
19415548--19415638	44	2.1	44	95	0	164	38	16	20	24	1.93
19415833--19415923	44	2.1	44	95	0	164	38	18	19	23	1.93
19415546--19416153	285	2.2	274	94	3	1054	34	14	20	30	1.93
19415877--19416303	115	3.7	115	96	0	764	32	14	21	31	1.93
19417053--19417468	113	3.7	113	87	3	584	36	15	18	30	1.91
19417290--19417649	188	1.9	188	86	1	506	36	16	16	30	1.91
19417477--19418059	113	5.2	113	86	4	725	37	14	18	29	1.90
19417173--19417758	301	1.9	303	87	3	849	36	14	17	31	1.90
19417021--19417885	417	2.1	414	88	2	1286	36	15	17	30	1.91
19417477--19418059	229	2.6	226	84	6	749	37	14	18	29	1.90
19418000--19418092	36	2.6	36	96	0	168	49	10	21	18	1.77
19418000--19418057	17	3.3	17	70	25	57	50	8	22	18	1.74
19418039--19418315	124	2.3	120	85	6	373	41	15	18	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19418471--19418527	3	19.0	3	92	0	87	38	0	0	61	0.96
19418473--19418525	18	2.9	18	94	0	97	39	0	0	60	0.97
19419995--19420044	23	2.0	26	85	11	70	46	2	0	52	1.12
19428270--19428303	17	2.1	16	89	10	52	76	0	0	23	0.79
19429999--19430045	19	2.5	19	92	0	76	51	2	0	46	1.13
19431323--19431360	15	2.6	15	79	4	51	76	0	10	13	1.02
19432806--19432905	21	4.7	21	81	7	130	22	36	22	20	1.96
19432925--19432997	20	3.7	20	86	0	101	19	24	23	32	1.97
19435328--19435368	19	2.1	20	86	13	59	56	12	0	31	1.36
19436491--19436542	10	5.1	10	79	4	59	38	9	15	36	1.80

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