genome.fa.s8356.2.7.7.80.10.50.1000.26.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  26  of  56  ( 6656 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)
5341546--5341601	21	2.7	21	91	0	94	35	35	12	16	1.86
5341710--5341941	42	5.5	42	90	1	277	20	13	38	27	1.91
5343445--5343498	20	2.7	20	82	5	65	51	20	12	14	1.75
5343495--5343531	19	1.9	19	88	0	56	10	21	18	48	1.78
5343524--5343562	20	2.0	20	89	0	60	15	10	15	58	1.62
5343526--5343569	20	2.2	20	83	0	52	15	11	15	56	1.66
5344009--5344057	20	2.5	20	96	0	89	16	12	24	46	1.81
5344547--5344687	3	45.0	3	73	14	108	61	4	1	32	1.24
5345088--5345123	4	9.2	4	93	6	65	77	0	22	0	0.76
5345194--5345244	16	3.1	17	83	8	61	29	0	11	58	1.33
5346346--5346375	8	3.8	8	95	0	51	33	0	16	50	1.46
5366696--5366730	18	1.9	18	100	0	70	11	22	37	28	1.89
5366721--5366770	24	2.2	22	82	7	55	20	30	22	28	1.98
5381047--5381082	18	2.0	18	94	0	63	41	19	0	38	1.52
5381399--5381601	53	3.8	53	80	1	165	29	22	9	38	1.85
5382917--5382953	18	2.1	18	85	14	51	43	0	2	54	1.14
5389870--5389918	22	2.2	22	96	0	89	36	34	6	22	1.79
5390156--5390204	19	2.6	19	86	0	62	30	18	30	20	1.96
5390163--5390208	19	2.4	19	88	0	65	28	15	34	21	1.94
5393509--5393550	21	2.0	21	81	9	50	40	23	7	28	1.81
5396507--5396549	15	2.9	15	93	6	70	32	9	9	48	1.67
5398751--5398798	25	2.1	23	82	17	57	45	0	2	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5400041--5400099	31	1.9	31	82	6	75	44	3	1	50	1.28
5401094--5401158	27	2.4	27	89	0	94	41	6	10	41	1.65
5416238--5416262	12	2.1	12	100	0	50	16	8	16	60	1.58
5427255--5428107	423	2.0	424	90	1	1345	29	9	21	39	1.85
5429156--5429210	21	2.6	21	100	0	110	21	20	23	34	1.97
5430409--5430471	3	21.7	3	75	6	58	38	1	1	58	1.17
5430691--5430807	26	4.5	26	87	1	162	29	45	12	11	1.78
5433981--5434043	25	2.5	25	94	0	117	31	11	28	28	1.91
5441794--5443192	115	12.2	114	89	3	2047	29	23	17	30	1.97
5443102--5443201	49	2.0	49	80	3	112	28	20	18	34	1.95
5443457--5443496	17	2.2	19	86	8	57	42	0	0	57	0.98
5443460--5443505	17	2.9	17	81	12	53	45	0	0	54	0.99
5443721--5443829	26	4.2	26	89	1	146	30	44	11	13	1.78
5444821--5444853	15	2.2	15	94	0	57	33	0	15	51	1.43
5445848--5445872	4	6.2	4	100	0	50	24	0	0	76	0.80
5452049--5452115	16	4.4	16	70	21	54	7	28	8	55	1.58
5453046--5453098	22	2.4	22	87	6	72	54	11	26	7	1.62
5453056--5453131	41	1.9	40	92	7	129	50	15	28	5	1.66
5453361--5453416	13	4.2	13	76	13	51	66	0	5	28	1.14
5453361--5453405	18	2.6	18	82	3	56	64	0	4	31	1.13
5453460--5453492	12	2.8	12	95	0	57	39	0	0	60	0.97
5453471--5453514	19	2.4	19	88	7	65	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5460641--5460738	3	31.3	3	70	11	54	7	27	5	60	1.44
5461631--5461683	22	2.4	22	87	6	72	54	11	26	7	1.62
5461641--5461716	41	1.9	40	89	7	120	50	14	28	6	1.68
5461946--5462001	13	4.2	13	76	13	51	66	0	5	28	1.14
5461946--5461990	18	2.6	18	82	3	56	64	0	4	31	1.13
5462046--5462089	12	3.8	12	87	6	63	40	0	0	59	0.98
5462067--5462110	18	2.4	18	85	14	63	43	0	0	56	0.99
5469458--5469521	20	3.1	21	80	6	78	32	1	1	64	1.13
5476970--5477066	4	24.2	4	78	0	50	52	11	27	8	1.65
5476970--5477183	24	9.2	24	74	8	111	52	10	25	10	1.68
5476998--5477148	20	7.3	20	77	12	110	53	9	26	10	1.65
5477122--5477178	8	7.1	8	81	0	69	50	12	22	14	1.75
5477132--5477176	4	11.2	4	85	0	54	51	8	24	15	1.72
5476978--5477188	20	10.8	20	75	4	106	52	9	25	11	1.69
5476969--5477188	16	13.2	16	70	5	71	52	10	25	11	1.70
5484767--5484817	20	2.5	20	78	6	59	43	23	11	21	1.85
5484953--5485010	22	2.6	22	86	0	89	20	44	17	17	1.86
5485349--5485387	20	2.0	20	94	0	69	53	20	10	15	1.70
5486940--5487037	21	4.7	21	71	7	83	20	13	34	31	1.91
5486940--5487040	42	2.4	41	75	8	114	20	12	34	31	1.91
5487148--5487189	4	10.5	4	84	0	57	26	0	4	69	1.08
5487333--5487453	21	5.8	20	69	2	71	23	33	19	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5487331--5487447	42	2.8	42	87	3	148	23	31	18	26	1.97
5488555--5488950	207	1.9	206	91	3	652	26	8	23	41	1.82
5491745--5491791	24	2.0	24	91	0	76	38	21	19	21	1.94
5492697--5492795	52	1.9	52	89	4	155	27	13	10	49	1.73
5492921--5493005	23	3.7	23	96	3	163	22	38	8	30	1.83
5493787--5493844	31	2.0	29	83	10	73	62	8	24	5	1.45
5495758--5495796	12	3.2	12	79	13	53	48	5	10	35	1.59
5502342--5502425	29	2.8	31	81	10	88	32	13	8	46	1.72
5504923--5505063	62	2.3	63	78	3	151	34	14	19	31	1.91
5514796--5514902	7	15.6	7	73	13	62	76	0	15	6	1.04
5514799--5514905	22	4.7	22	75	9	92	76	0	15	6	1.04
5514857--5514902	19	2.3	20	85	7	58	78	0	17	4	0.91
5517952--5518144	104	1.9	104	83	2	253	35	23	16	24	1.94
5522209--5522321	32	3.5	32	79	2	111	33	18	11	36	1.87
5522785--5522817	16	2.1	16	94	0	57	21	12	9	57	1.62
5526214--5526278	22	2.9	22	90	2	103	27	21	23	27	1.99
5526419--5526468	26	1.9	26	100	0	100	28	0	12	60	1.32
5529169--5529197	14	2.1	14	93	6	51	62	10	0	27	1.28
5531299--5531392	28	3.3	27	84	8	116	41	1	13	43	1.51
5531317--5531537	29	7.7	28	77	13	173	39	4	9	45	1.59
5531374--5531508	58	2.3	58	87	7	195	38	5	8	47	1.57
5531375--5531534	87	1.8	87	85	7	227	38	6	8	46	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5531518--5531569	24	2.2	23	79	3	59	44	0	3	51	1.19
5534290--5534341	17	3.2	17	75	10	54	32	3	13	50	1.60
5538829--5538893	22	2.9	22	81	2	85	30	20	21	27	1.98
5540981--5541121	38	3.6	39	86	6	128	43	9	5	41	1.60
5540980--5541364	37	10.1	38	83	7	303	40	10	6	42	1.65
5541022--5541404	37	10.3	36	83	5	349	39	10	6	42	1.66
5541040--5541346	76	4.0	75	80	9	279	41	10	6	41	1.66
5541367--5541443	34	2.3	34	90	0	118	36	11	3	48	1.58
5542726--5543075	176	2.0	177	92	0	585	33	15	19	31	1.93
5543081--5543136	21	2.6	23	75	18	66	39	7	0	53	1.28
5543120--5543165	23	2.0	22	87	4	65	45	0	2	52	1.13
5550334--5550411	22	3.5	22	74	5	77	32	24	15	28	1.95
5553832--5553884	21	2.5	21	84	6	63	35	22	20	20	1.96
5563443--5563548	53	2.0	53	94	0	185	28	12	19	39	1.88
5571218--5571284	20	3.4	20	75	13	59	31	17	22	28	1.97
5571317--5571355	20	2.0	19	85	5	51	33	12	30	23	1.92
5572253--5572311	29	2.0	29	96	0	109	25	13	11	49	1.76
5578434--5578503	19	3.7	19	90	5	99	24	15	37	22	1.93
5578308--5578469	64	2.5	62	77	7	157	27	17	27	27	1.98
5578373--5578535	83	2.0	84	83	1	211	25	16	26	31	1.97
5581127--5581206	24	3.5	23	73	14	85	28	23	25	22	1.99
5581104--5581226	44	2.8	42	71	12	113	26	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5587018--5587124	45	2.4	42	77	13	115	31	15	23	28	1.96
5587108--5587158	19	2.7	19	85	8	70	25	15	35	23	1.94
5590306--5590380	20	3.6	20	72	16	64	73	1	4	21	1.07
5592592--5593260	105	6.4	105	99	0	1320	22	18	24	35	1.96
5596879--5598365	744	2.0	744	98	0	2902	23	23	20	32	1.98
5604233--5604276	20	2.2	20	88	8	63	72	2	6	18	1.17
5605267--5605305	19	2.1	19	90	0	60	79	0	2	17	0.84
5605542--5605585	23	2.0	22	86	4	61	65	0	4	29	1.12
5605479--5605745	130	2.1	128	78	12	287	58	4	10	26	1.48
5608306--5608561	128	2.0	126	91	7	416	56	3	8	31	1.45

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