genome.fa.s7984.2.7.7.80.10.50.1000.63.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  63  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)
12365694--12365830	20	6.6	22	80	7	110	20	12	27	39	1.88
12380324--12380357	10	3.4	10	91	0	59	61	17	20	0	1.34
12380630--12380657	14	2.0	14	100	0	56	42	0	7	50	1.30
12382001--12382045	23	2.0	23	86	0	63	11	8	15	64	1.49
12382303--12382353	24	2.1	24	85	0	66	15	19	11	52	1.73
12391170--12391221	10	5.0	10	72	9	50	50	0	0	50	1.00
12391162--12391221	22	2.8	22	71	14	63	53	0	0	46	1.00
12391160--12391221	32	1.9	32	96	0	115	53	0	0	46	1.00
12391163--12391232	32	2.2	32	89	0	104	54	1	1	42	1.18
12391850--12391935	31	2.8	32	91	5	133	48	9	16	25	1.75
12401474--12401553	36	2.2	36	95	0	142	21	13	20	45	1.85
12403533--12403585	17	3.1	17	94	2	88	49	5	9	35	1.59
12404465--12405108	319	2.0	320	96	1	1197	24	18	20	35	1.95
12407705--12407776	33	2.1	35	90	10	114	31	11	15	41	1.82
12412585--12412660	36	2.1	36	97	0	143	31	10	14	43	1.79
12416677--12416756	34	2.4	34	95	0	142	70	2	1	26	1.08
12418413--12418478	30	2.2	30	89	7	100	30	6	24	39	1.79
12425612--12425786	29	6.2	28	81	14	166	34	4	19	41	1.72
12425607--12425767	57	2.8	57	80	13	186	34	5	21	39	1.77
12430445--12430481	17	2.1	18	90	5	58	37	0	2	59	1.12
12431043--12431084	19	2.2	19	83	8	50	33	4	16	45	1.69
12434278--12434381	39	2.7	39	79	19	135	44	0	19	35	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12434378--12434466	25	3.4	26	74	14	69	56	1	1	41	1.14
12434380--12434436	24	2.3	25	82	14	73	61	0	1	36	1.07
12434425--12434464	2	20.5	2	84	5	55	47	2	0	50	1.14
12435792--12435832	22	1.9	22	85	5	57	26	7	14	51	1.69
12436354--12436411	29	2.0	29	83	12	75	56	1	0	41	1.09
12438488--12438560	22	3.2	24	66	18	73	36	13	8	41	1.75
12438476--12438567	45	2.0	45	97	0	175	35	13	8	42	1.75
12442611--12442683	22	3.2	24	66	18	73	36	13	8	41	1.75
12442599--12442690	45	2.0	45	100	0	184	34	13	9	42	1.77
12448819--12449374	276	2.0	280	97	1	1057	29	17	19	33	1.95
12449920--12449999	22	3.6	22	85	9	101	22	27	26	23	2.00
12452254--12452286	11	2.8	12	90	4	50	42	15	3	39	1.62
12453296--12453392	48	2.0	47	88	5	142	26	37	9	26	1.87
12453539--12453563	2	12.5	2	100	0	50	48	0	0	52	1.00
12453602--12453636	18	2.0	17	94	5	61	11	14	0	74	1.08
12453641--12453695	17	3.3	17	80	10	60	20	12	0	67	1.23
12453724--12453787	31	2.1	31	82	5	76	17	6	0	76	0.98
12453758--12453838	42	1.9	44	82	12	107	19	8	0	71	1.11
12461020--12461056	20	1.9	19	89	10	58	45	5	24	24	1.74
12468524--12468731	103	2.0	104	97	2	393	28	17	10	43	1.82
12470248--12470316	36	2.0	34	83	13	88	47	4	2	44	1.37
12478858--12478899	15	2.9	15	89	3	59	71	0	4	23	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12491104--12491136	16	2.0	17	88	5	50	54	6	9	30	1.56
12497220--12497262	21	2.0	21	90	0	68	32	27	23	16	1.96
12497287--12497327	20	2.0	20	90	0	64	24	31	34	9	1.88
12497809--12498129	103	3.1	103	99	0	624	25	13	24	36	1.92
12498146--12498208	23	2.7	23	85	4	83	20	26	25	26	1.99
12498938--12499215	123	2.3	123	91	1	441	30	16	21	30	1.96
12499516--12499553	11	3.5	11	92	3	60	10	42	0	47	1.38
12502394--12502425	14	2.3	14	100	0	64	15	21	18	43	1.87
12503136--12503335	42	4.7	42	79	8	183	24	22	20	33	1.97
12503136--12503335	83	2.4	86	83	3	237	24	22	20	33	1.97
12513943--12514066	21	5.8	22	73	16	118	20	20	23	36	1.95
12513938--12514068	42	3.1	42	97	0	244	21	19	24	35	1.96
12514823--12515038	21	10.4	21	79	9	203	24	19	22	33	1.97
12514823--12515021	83	2.4	86	83	9	254	24	18	22	34	1.96
12515467--12515508	22	2.0	22	85	4	59	38	11	0	50	1.40
12522210--12522274	23	2.9	22	78	13	62	18	7	16	56	1.63
12523551--12523613	23	2.7	24	85	7	85	14	19	15	50	1.77
12523553--12523613	24	2.6	23	84	7	79	14	19	16	49	1.80
12524612--12524671	22	2.7	22	84	2	75	50	11	23	15	1.76
12533511--12533798	42	6.9	41	72	11	183	26	15	6	51	1.67
12533513--12533753	42	5.8	42	75	12	201	26	14	6	51	1.66
12533512--12533798	82	3.4	80	75	9	252	26	15	6	51	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12534050--12534116	20	3.3	20	97	0	125	32	26	19	20	1.97
12534047--12534135	40	2.2	40	82	9	110	37	24	16	21	1.94
12534294--12534335	22	1.9	22	85	9	59	23	35	14	26	1.93
12535883--12535935	24	2.2	24	89	0	79	32	5	15	47	1.68
12543383--12543431	17	2.9	16	88	8	71	38	0	0	61	0.96
12543478--12543596	28	4.2	28	79	11	100	34	5	0	59	1.25
12543499--12543596	28	3.4	28	81	12	110	37	3	0	59	1.13
12543516--12543575	17	3.7	17	68	20	56	36	1	0	61	1.06
12543685--12543842	30	5.6	28	70	20	116	60	0	3	35	1.15
12552249--12552301	21	2.5	21	75	6	54	22	26	18	32	1.97
12552291--12552342	21	2.5	21	87	3	70	38	17	23	21	1.93
12552328--12552444	41	2.9	41	82	3	121	32	26	17	23	1.96
12552332--12552460	20	6.4	20	83	5	143	28	27	17	25	1.98
12552386--12552469	20	4.2	20	90	3	116	23	28	17	29	1.97
12552433--12552478	20	2.3	20	84	0	56	30	26	19	23	1.98
12552393--12552478	40	2.2	40	84	0	109	27	27	17	26	1.98
12552676--12552766	20	4.6	20	92	0	155	36	24	23	16	1.94
12552790--12552836	20	2.3	20	100	0	94	14	23	25	36	1.93
12552790--12552879	20	4.8	20	77	15	75	13	21	25	40	1.89
12554375--12554467	42	2.2	42	88	0	141	20	15	43	21	1.88
12554403--12554463	21	2.9	21	73	9	70	21	13	42	22	1.87
12554805--12554857	20	2.7	20	87	0	70	33	24	13	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12554850--12554924	21	3.7	20	73	10	71	38	24	17	20	1.93
12554827--12554906	20	4.0	20	76	9	72	37	23	17	21	1.94
12554831--12554924	41	2.3	41	86	0	125	38	23	18	20	1.93
12555091--12555134	22	2.0	22	95	0	79	27	43	9	20	1.82
12555413--12555460	18	2.7	18	93	0	87	14	12	45	27	1.81
12556789--12556838	20	2.5	20	86	0	64	40	26	18	16	1.90
12557331--12557403	20	3.7	20	90	0	110	24	19	27	28	1.98
12557393--12557445	21	2.5	21	87	0	79	24	22	15	37	1.92
12557945--12557974	2	15.0	2	100	0	60	50	0	0	50	1.00
12559414--12559463	21	2.5	20	83	6	64	72	2	10	16	1.21
12563933--12563978	18	2.6	18	89	0	65	13	17	50	19	1.78
12568413--12568450	2	19.0	2	94	0	67	47	2	0	50	1.15
12571069--12571167	18	5.5	18	96	0	180	28	33	22	16	1.95
12572823--12572876	20	2.7	20	77	11	74	27	31	14	25	1.95
12572906--12572957	20	2.6	20	90	0	86	38	26	15	19	1.91
12572945--12572995	19	2.7	19	90	0	84	35	21	13	29	1.92
12578150--12578205	21	2.7	21	76	15	53	26	12	30	30	1.93
12579005--12579068	30	2.1	30	85	0	83	34	28	18	18	1.95
12579745--12580015	64	4.2	64	78	10	236	26	18	19	35	1.95
12579740--12580015	128	2.2	128	80	6	301	26	18	19	35	1.95
12584058--12584328	64	4.2	64	77	10	218	26	18	19	36	1.94
12584053--12584328	128	2.2	128	80	6	301	26	17	19	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12585157--12585198	12	3.5	12	83	0	57	66	0	2	30	1.04
12585434--12585460	13	2.1	13	100	0	54	22	40	22	14	1.90
12587265--12587290	13	2.0	13	100	0	52	76	15	7	0	0.99
12587508--12587558	22	2.3	22	86	0	75	23	11	41	23	1.87
12587686--12587770	20	4.2	20	90	0	134	18	16	24	40	1.91
12587686--12587770	40	2.1	40	97	0	161	18	16	24	40	1.91
12589097--12589121	2	12.5	2	100	0	50	48	0	0	52	1.00
12590378--12590440	18	3.5	18	88	0	99	25	33	19	22	1.97
12592848--12592910	33	1.9	33	83	6	83	46	7	17	28	1.76
12596799--12596846	23	2.2	21	85	10	62	20	39	18	20	1.92

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