genome.fa.s9175.2.7.7.80.10.50.1000.32.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  32  of  51  ( 6037 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)
6483270--6483356	30	2.9	29	78	14	79	3	18	1	77	0.98
6483352--6483387	11	3.3	11	100	0	72	16	8	0	75	1.04
6483273--6483367	29	3.3	28	73	15	88	5	16	1	76	1.02
6493009--6493107	45	2.1	47	88	5	148	38	20	13	28	1.90
6503715--6503750	3	12.0	3	93	0	63	63	0	2	33	1.08
6503943--6504204	138	1.9	138	86	0	371	25	17	28	28	1.97
6504216--6504337	36	3.4	36	86	0	145	41	9	20	28	1.82
6504322--6504385	31	2.0	32	87	3	94	32	10	17	39	1.84
6506515--6506558	21	2.1	21	83	8	54	15	4	15	63	1.46
6507018--6507262	45	5.4	44	78	10	201	41	8	20	29	1.83
6507015--6507259	90	2.7	90	77	5	255	41	8	20	29	1.83
6506998--6507257	136	1.9	135	85	2	360	41	8	20	29	1.82
6510957--6511220	45	5.8	45	83	3	280	40	9	20	29	1.84
6510959--6511217	136	1.9	135	85	5	362	40	10	20	29	1.85
6511009--6511259	136	1.9	135	84	6	312	41	8	19	30	1.82
6515752--6515938	45	4.1	45	81	8	200	41	9	21	27	1.84
6515752--6515938	91	2.1	90	82	7	218	41	9	21	27	1.84
6516725--6516806	35	2.3	35	85	0	119	37	0	19	42	1.51
6521668--6521908	128	1.9	128	85	2	315	39	18	12	29	1.88
6522188--6522273	21	4.1	21	82	5	102	24	22	15	38	1.92
6522193--6522273	42	1.9	42	92	5	137	24	20	14	39	1.91
6522267--6522338	20	3.7	20	83	3	92	37	23	15	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6522258--6522341	39	2.1	41	86	4	118	35	23	16	23	1.95
6522267--6522356	20	4.6	20	79	9	87	36	23	14	25	1.93
6523262--6523315	24	2.2	24	86	0	72	22	16	18	42	1.89
6526102--6526151	25	2.0	25	92	0	82	26	10	22	42	1.84
6526531--6526567	18	2.1	18	89	0	56	29	8	10	51	1.65
6526523--6526575	24	2.2	24	89	0	79	35	5	11	47	1.63
6526867--6526953	39	2.2	39	95	0	156	48	19	14	17	1.81
6527127--6527166	20	2.0	20	95	0	71	40	22	20	17	1.92
6527306--6527404	13	7.4	14	66	10	55	55	17	1	26	1.48
6527306--6527446	61	2.2	63	83	8	171	51	17	1	29	1.55
6530095--6530127	15	2.2	15	94	0	57	18	9	63	9	1.49
6530210--6530250	21	2.0	21	90	0	64	41	12	26	19	1.87
6530287--6530352	33	2.0	33	93	0	114	30	0	46	22	1.52
6530557--6530611	15	3.5	15	73	22	58	52	0	43	3	1.18
6530540--6530627	33	2.7	33	94	3	151	51	0	45	3	1.18
6532182--6532226	19	2.4	19	88	7	65	28	2	11	57	1.45
6532404--6534101	182	9.4	182	93	1	2898	41	13	17	27	1.87
6532404--6535550	361	8.7	361	93	2	5318	41	13	17	27	1.87
6533930--6534263	162	2.1	162	96	0	614	42	11	17	29	1.84
6534092--6535550	182	8.0	182	93	2	2506	41	13	17	27	1.87
6535695--6535824	64	2.0	64	95	0	233	32	12	10	44	1.76
6539280--6539309	15	2.0	15	93	0	51	13	43	26	16	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6539289--6539347	23	2.6	23	84	7	77	11	47	23	16	1.80
6539326--6539369	13	3.4	13	93	0	70	11	52	15	20	1.74
6540254--6540289	14	2.6	14	95	0	63	13	33	16	36	1.89
6549496--6549545	23	2.2	23	81	0	55	14	22	50	14	1.77
6560898--6560990	5	18.6	5	100	0	186	39	0	0	60	0.97
6561783--6561811	2	14.5	2	100	0	58	51	0	0	48	1.00
6561906--6561963	29	1.9	30	82	6	73	41	5	15	37	1.70
6564175--6565339	579	2.0	581	91	1	1908	30	20	19	28	1.97
6567720--6567762	21	2.0	21	86	0	59	39	11	16	32	1.84
6569937--6569974	18	2.1	18	85	9	51	44	0	2	52	1.14
6569966--6570000	18	1.9	18	88	0	52	34	2	2	60	1.26
6576256--6576303	22	2.2	22	96	0	87	35	12	16	35	1.87
6576938--6577084	45	3.3	45	70	12	140	40	15	21	22	1.91
6576937--6577221	89	3.1	89	82	5	304	37	14	20	27	1.92
6576970--6577279	96	3.3	96	81	5	334	37	15	19	28	1.92
6578274--6578350	39	1.9	39	84	5	100	57	11	24	6	1.58
6581743--6581792	21	2.4	21	86	0	64	28	0	26	46	1.53
6581898--6581925	13	2.2	13	100	0	56	7	0	57	35	1.26
6582248--6582292	2	22.5	2	100	0	90	48	0	0	51	1.00
6584083--6584130	19	2.5	19	96	3	87	14	6	6	72	1.24
6584133--6584165	15	2.1	17	88	11	52	48	6	12	33	1.65
6583992--6584231	115	2.1	113	86	5	333	36	5	7	50	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6584106--6584300	92	2.1	95	86	9	292	41	6	9	43	1.61
6587126--6587175	18	2.9	18	82	5	59	18	20	32	30	1.96
6595351--6595402	20	2.6	20	90	0	86	32	9	25	32	1.88
6595534--6595582	19	2.5	19	83	3	53	38	10	18	32	1.84
6596541--6596589	2	24.5	2	100	0	98	51	0	0	48	1.00
6597697--6597843	60	2.5	60	81	9	176	45	4	19	30	1.69
6597707--6597860	60	2.6	60	77	3	159	47	3	16	31	1.65
6598121--6598176	19	2.9	19	97	0	103	32	30	16	21	1.95
6598223--6598274	21	2.5	21	81	6	61	25	19	23	32	1.97
6598262--6598314	20	2.7	20	90	0	88	39	16	20	22	1.92
6598303--6598398	21	4.6	21	81	12	126	31	27	22	18	1.97
6598345--6598492	20	7.3	20	77	11	158	29	25	20	24	1.99
6598324--6598414	41	2.2	41	94	0	164	29	27	21	20	1.98
6598303--6598492	61	3.1	61	88	3	267	30	26	21	22	1.98
6598387--6598515	61	2.1	61	80	7	145	30	26	17	25	1.98
6599309--6599355	24	2.0	24	95	0	85	27	21	17	34	1.95
6599560--6599592	14	2.5	13	86	13	50	48	24	21	6	1.72
6599567--6599593	14	1.9	14	100	0	54	44	29	18	7	1.77
6601838--6602081	20	12.9	20	77	10	226	35	20	19	24	1.96
6601943--6602125	73	2.5	73	87	1	249	36	21	20	22	1.96
6601980--6602115	34	3.9	34	77	12	130	36	21	21	21	1.96
6602267--6602506	132	1.8	133	98	0	464	45	15	5	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6603788--6603894	21	5.1	21	74	0	97	22	17	38	21	1.93
6603790--6603899	42	2.6	42	81	2	123	23	18	38	20	1.93
6604376--6604419	20	2.2	20	95	0	79	54	22	9	13	1.67
6604406--6604474	20	3.5	20	89	0	84	37	24	15	21	1.93
6604446--6604526	33	2.4	33	93	2	135	39	24	20	14	1.91
6604466--6604526	14	4.0	14	73	19	50	42	24	21	11	1.86
6604466--6604545	33	2.4	33	87	0	106	43	26	20	10	1.82
6604510--6604546	19	1.9	19	100	0	74	48	29	16	5	1.68
6604551--6604727	20	9.4	20	72	14	126	19	20	23	36	1.95
6604548--6604722	74	2.4	74	88	3	289	21	21	22	35	1.96
6604555--6604691	34	3.9	34	76	11	139	18	21	23	35	1.96
6604609--6604711	54	1.9	54	82	4	127	19	21	24	34	1.96
6606730--6606770	20	2.0	20	95	0	73	58	19	12	9	1.61
6606737--6606805	20	3.5	20	87	0	75	43	23	17	15	1.87
6606753--6606821	20	3.5	20	89	0	93	36	24	17	21	1.95
6606793--6606873	33	2.4	34	89	4	128	37	24	20	17	1.94
6607213--6607285	22	3.3	22	90	0	119	21	16	42	19	1.89
6607455--6607560	20	5.2	20	84	10	144	23	21	27	27	1.99
6607455--6607580	61	2.1	60	91	4	200	23	22	26	28	1.99
6607423--6607613	61	3.1	61	81	5	165	26	21	21	30	1.98
6607675--6607721	19	2.4	19	82	3	58	25	14	29	29	1.95
6607687--6607723	19	1.9	19	94	0	65	21	16	29	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6608207--6608249	21	2.0	21	90	0	68	32	9	9	48	1.67
6608677--6608739	28	2.2	28	97	0	117	34	15	7	41	1.77
6618231--6618289	29	2.0	29	100	0	118	45	6	16	30	1.74
6618776--6618850	37	2.0	37	100	0	150	38	10	21	29	1.87
6619000--6619113	59	1.9	60	83	5	151	33	16	14	35	1.90
6621687--6621755	34	2.0	34	100	0	138	23	17	26	33	1.96
6638814--6638866	24	2.2	24	96	0	97	15	11	13	60	1.59
6639626--6639655	16	1.9	15	93	6	51	53	3	6	36	1.44
6642073--6642112	20	2.1	19	95	4	71	25	15	10	50	1.74
6643050--6643085	16	2.2	17	90	5	56	25	2	2	69	1.15

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