genome.fa.s9634.2.7.7.80.10.50.1000.47.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  47  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)
9377726--9377906	42	4.3	42	82	1	211	25	20	20	32	1.97
9377908--9377980	37	2.0	37	86	0	101	45	15	17	21	1.85
9377982--9378783	111	7.2	111	89	3	1178	29	25	17	28	1.97
9378941--9378989	3	16.3	3	83	8	64	34	2	0	63	1.06
9380854--9380911	2	29.0	2	100	0	116	50	0	0	50	1.00
9385050--9385105	28	2.0	28	86	10	80	21	5	1	71	1.15
9390399--9390873	236	2.0	236	95	0	851	33	11	23	31	1.90
9391399--9391615	5	40.6	5	70	21	88	78	1	16	3	0.96
9391408--9391615	22	9.1	22	72	16	86	78	1	16	3	0.95
9391423--9391615	23	8.5	22	75	19	134	78	0	17	3	0.89
9391401--9391606	34	6.0	33	72	21	122	78	1	16	3	0.98
9391429--9391615	41	4.2	44	75	17	158	78	0	17	3	0.89
9391399--9391601	10	18.8	10	71	17	113	78	1	15	3	0.96
9393625--9393798	66	2.7	65	73	8	165	36	16	7	40	1.76
9393742--9394021	103	2.7	102	80	3	303	33	17	10	37	1.85
9394641--9394888	116	2.1	115	83	5	311	41	15	17	25	1.89
9394417--9394888	105	4.2	115	77	10	320	39	16	17	26	1.91
9395849--9395881	14	2.4	14	90	10	50	30	18	0	51	1.46
9397907--9397953	20	2.2	22	92	7	80	38	29	8	23	1.84
9407408--9407457	24	2.1	24	92	0	82	20	4	20	56	1.58
9407547--9408113	285	2.0	285	89	3	876	38	12	8	39	1.75
9409861--9409918	30	1.9	31	85	3	82	37	1	15	44	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9412037--9412072	11	3.3	11	96	0	63	22	0	0	77	0.76
9412494--9412520	2	13.5	2	100	0	54	51	0	0	48	1.00
9414392--9414440	19	2.7	17	84	9	53	26	20	28	24	1.99
9414412--9414616	65	3.2	62	76	12	202	25	18	24	30	1.98
9414579--9414643	27	2.4	27	100	0	130	18	16	35	29	1.93
9414579--9414625	15	3.3	15	71	17	55	19	17	36	27	1.93
9414915--9415000	39	2.2	39	93	2	147	31	30	3	34	1.75
9415632--9415675	21	2.1	21	82	0	52	31	15	43	9	1.79
9420898--9420937	21	1.9	21	85	10	55	35	10	2	52	1.48
9422843--9422891	19	2.7	17	84	9	53	26	20	28	24	1.99
9422908--9422959	19	2.7	19	100	0	104	17	21	34	26	1.95
9422863--9423020	83	1.9	83	83	7	205	26	20	24	28	1.99
9426615--9426690	26	2.9	26	92	2	125	35	15	14	34	1.88
9426448--9426786	95	3.5	95	80	10	387	39	16	8	35	1.79
9426613--9426771	26	6.0	26	75	10	115	38	16	8	35	1.80
9426721--9426777	27	2.2	26	83	3	69	45	15	5	33	1.69
9426744--9426903	65	2.4	66	84	6	209	39	17	7	35	1.78
9426705--9427064	159	2.3	159	92	1	578	38	16	7	37	1.77
9426809--9426995	94	2.0	92	86	2	257	37	16	9	36	1.81
9426903--9427064	69	2.4	67	86	7	213	38	15	8	37	1.77
9427042--9427117	26	2.9	26	82	2	89	32	13	15	38	1.86
9430211--9430240	13	2.2	14	94	5	53	40	13	26	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9431734--9431795	28	2.1	30	85	5	83	40	9	14	35	1.79
9432297--9432338	17	2.5	17	96	0	75	54	9	11	23	1.66
9433503--9433679	39	4.5	39	78	5	144	17	25	22	34	1.96
9436425--9436477	20	2.7	20	93	0	88	33	20	20	24	1.97
9436715--9436818	42	2.5	41	81	6	129	33	20	22	24	1.97
9436445--9436944	259	1.9	259	90	0	795	34	16	15	33	1.90
9439039--9439158	27	4.6	26	78	15	106	3	19	0	76	0.97
9439106--9439157	5	9.8	5	80	15	52	1	17	0	80	0.80
9439039--9439158	38	3.1	38	78	14	113	3	19	0	76	0.97
9439039--9439165	33	3.6	34	75	20	88	3	18	0	76	0.99
9439066--9439165	43	2.2	46	83	13	127	4	17	1	78	0.97
9446852--9446888	3	12.7	3	83	16	51	72	0	0	27	0.84
9448304--9448648	172	2.0	172	93	1	584	39	12	19	28	1.89
9449326--9449407	3	27.0	3	90	2	128	65	3	0	30	1.09
9450016--9450053	20	1.9	20	94	0	67	31	18	21	28	1.97
9453543--9453605	27	2.3	27	81	8	74	61	14	15	7	1.54
9453589--9453623	14	2.6	14	86	4	54	80	0	20	0	0.72
9454831--9454873	23	1.9	21	81	13	50	32	18	13	34	1.90
9458113--9458168	15	3.9	15	77	11	55	26	16	10	46	1.79
9459358--9459407	24	2.1	24	84	0	64	30	38	0	32	1.58
9459428--9459490	27	2.3	27	97	0	117	31	42	0	25	1.55
9459393--9459498	33	3.4	30	76	16	92	29	40	0	29	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9459481--9459524	15	2.9	15	82	0	52	20	36	0	43	1.52
9462144--9462201	29	2.0	30	86	3	82	67	0	10	22	1.21
9463329--9463700	5	73.8	5	77	11	286	53	3	1	41	1.29
9479008--9479507	56	9.0	56	83	3	600	29	15	17	37	1.91
9479008--9479516	221	2.3	219	86	4	691	29	15	17	37	1.91
9479972--9480011	21	2.0	19	90	9	62	27	20	17	35	1.95
9486112--9486394	64	4.1	73	79	13	205	30	1	12	56	1.44
9486232--9486330	19	4.8	19	68	18	56	31	0	14	54	1.40
9486217--9486394	64	2.8	65	84	13	267	30	0	14	55	1.39
9486979--9487023	18	2.4	19	81	3	56	20	6	4	68	1.29
9490006--9490103	5	19.8	5	69	13	60	18	3	5	73	1.15
9489997--9490047	11	4.6	11	85	7	68	11	1	5	80	0.97
9490006--9490102	21	4.9	21	72	11	71	18	3	5	73	1.16
9490028--9490104	29	2.8	25	77	22	75	20	2	3	72	1.12
9490028--9490102	15	5.2	14	75	10	71	21	2	4	72	1.14
9491903--9492114	74	2.8	75	89	2	311	27	0	12	59	1.37
9492040--9492160	65	1.9	64	89	5	190	30	0	13	56	1.38
9491903--9492160	74	3.6	72	85	7	282	28	0	13	57	1.39
9492746--9492789	18	2.4	19	88	3	63	20	6	0	72	1.07
9493108--9493785	55	12.3	55	81	4	769	28	16	17	36	1.93
9493108--9493785	109	6.2	109	84	4	801	28	16	17	36	1.93
9503855--9504049	105	1.9	105	95	2	356	26	26	16	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9514791--9514820	15	2.0	15	100	0	60	33	13	20	33	1.91
9517810--9517837	13	2.2	13	100	0	56	25	7	14	53	1.66
9517823--9518180	193	1.9	193	92	0	608	31	11	15	41	1.82
9518021--9518316	157	1.9	157	93	0	511	31	10	15	42	1.81
9519269--9519401	40	3.3	41	75	15	134	34	20	14	30	1.92
9519258--9519485	80	2.8	81	79	9	214	30	17	17	33	1.94
9519991--9520040	26	1.9	26	87	0	73	40	18	10	32	1.83
9521646--9521688	14	2.9	14	93	6	68	39	0	2	58	1.11
9521840--9522105	43	6.2	43	77	5	227	26	21	17	34	1.96
9521840--9522009	85	2.0	85	84	6	220	25	20	19	34	1.96
9521863--9522085	85	2.6	85	79	6	211	26	21	16	34	1.95
9522083--9522133	26	2.0	26	84	0	66	15	15	19	49	1.80
9527257--9528091	134	6.2	134	85	3	1067	31	19	18	30	1.95
9528669--9528801	50	2.6	50	80	7	135	38	18	18	24	1.93
9528766--9528929	45	3.7	44	75	5	127	44	18	16	20	1.87
9543183--9543212	6	5.0	6	100	0	60	50	16	16	16	1.79
9543337--9543407	5	13.8	5	77	14	65	7	22	50	19	1.71
9543330--9543396	22	3.0	22	95	0	125	10	22	49	17	1.77
9543418--9543512	10	9.8	10	68	21	51	23	23	30	23	1.99
9543467--9543512	19	2.4	19	100	0	92	26	17	30	26	1.97
9543458--9543512	9	5.8	10	81	8	62	27	20	29	23	1.99
9543963--9544015	22	2.5	22	93	3	90	9	22	49	18	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9544020--9544064	19	2.4	19	88	0	63	24	28	26	20	1.99
9544025--9544078	19	2.8	19	86	8	65	29	29	24	16	1.97
9548358--9548407	23	2.1	24	88	3	75	18	16	6	60	1.55
9563865--9563919	24	2.2	25	83	3	67	83	0	10	5	0.79
9563866--9563928	8	8.0	8	74	13	51	80	0	14	4	0.86
9563870--9563947	32	2.5	32	80	13	92	75	0	19	5	0.98
9568882--9568925	24	1.9	24	86	9	65	34	9	2	54	1.44
9574849--9574900	21	2.5	21	81	3	61	38	19	25	17	1.93
9574886--9575002	61	1.9	61	87	0	171	34	22	17	25	1.96
9574889--9575002	20	5.7	20	82	6	122	32	22	18	26	1.97

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