genome.fa.s9639.2.7.7.80.10.50.1000.25.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  25  of  62  ( 7398 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)
5377256--5377285	3	10.0	3	100	0	60	33	0	0	66	0.92
5381375--5381426	21	2.4	21	75	12	52	50	11	0	38	1.39
5383910--5384177	134	2.0	134	100	0	536	31	21	15	31	1.95
5391114--5391151	18	2.1	18	100	0	76	39	28	26	5	1.78
5394074--5394155	38	2.2	37	89	6	121	48	1	0	50	1.08
5394088--5394147	17	3.3	17	76	19	59	50	0	0	50	1.00
5394176--5394221	22	2.0	24	83	8	60	34	2	0	63	1.07
5394207--5394261	26	2.2	25	83	9	67	50	0	0	49	1.00
5394219--5394273	26	2.1	26	86	6	76	47	1	0	50	1.11
5394530--5394591	23	2.8	21	73	23	56	41	1	0	56	1.09
5395402--5395849	97	4.5	99	80	9	465	33	11	14	41	1.81
5395362--5395843	197	2.5	196	83	6	618	32	10	14	41	1.81
5395876--5395913	19	2.0	19	89	0	58	39	13	5	42	1.66
5401900--5402092	103	1.8	106	93	3	338	21	28	19	30	1.98
5401843--5402093	53	5.0	52	85	8	340	21	27	21	30	1.98
5402604--5402690	41	2.1	41	91	4	140	33	18	21	26	1.96
5402839--5402915	33	2.2	35	84	13	104	22	20	22	35	1.96
5402921--5403016	42	2.3	41	83	3	122	34	23	17	23	1.96
5402933--5402996	22	3.0	21	68	17	60	32	25	17	25	1.96
5419893--5419946	21	2.6	22	85	8	69	12	16	24	46	1.82
5421094--5421172	23	3.4	23	92	0	131	12	31	0	55	1.37
5422361--5422411	22	2.3	21	80	9	66	25	15	21	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5425183--5425227	22	2.0	23	95	4	83	51	8	13	26	1.70
5428771--5428831	25	2.4	25	91	0	95	27	8	14	49	1.72
5432953--5432982	14	2.1	14	93	0	51	43	0	6	50	1.28
5433302--5433341	17	2.4	17	86	0	62	47	10	10	32	1.70
5433538--5433880	101	3.5	98	78	12	344	34	10	12	42	1.77
5436008--5436065	30	1.9	31	96	3	109	29	12	13	44	1.80
5443361--5443515	36	4.3	36	90	3	231	36	23	20	19	1.95
5443361--5443549	36	5.2	36	85	5	177	36	22	20	20	1.95
5443361--5443549	72	2.6	72	84	5	211	36	22	20	20	1.95
5443929--5444220	51	5.6	51	83	6	327	33	19	25	21	1.97
5443930--5444220	104	2.8	103	87	4	388	34	18	25	21	1.96
5444208--5444333	53	2.3	55	84	2	157	33	12	28	25	1.92
5448634--5448894	71	3.6	72	78	5	278	33	18	6	41	1.76
5448634--5448894	144	1.8	144	81	3	328	33	18	6	41	1.76
5448634--5448893	72	3.6	72	79	6	235	33	17	6	41	1.75
5449012--5449892	185	4.7	184	79	5	889	34	17	10	38	1.83
5448989--5449929	370	2.5	369	80	5	1033	34	17	10	37	1.84
5452353--5452419	34	2.0	34	85	11	93	43	17	19	19	1.89
5453160--5453194	2	17.5	2	100	0	70	48	0	0	51	1.00
5463643--5463712	36	1.9	36	94	0	122	37	22	18	21	1.94
5463722--5463840	53	2.2	53	83	2	150	31	19	26	22	1.98
5464105--5464129	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5469056--5469089	12	2.7	13	86	9	52	41	5	8	44	1.60
5470767--5470923	65	2.4	65	81	5	176	28	18	22	30	1.97
5470767--5470973	65	3.2	63	75	12	165	27	18	23	30	1.97
5477361--5477400	21	1.9	21	85	10	55	35	10	2	52	1.48
5477528--5477567	21	1.9	21	85	10	55	35	10	2	52	1.48
5479504--5479704	65	3.1	63	77	11	160	26	16	24	32	1.96
5480811--5480856	19	2.4	21	75	20	55	65	15	0	19	1.28
5481066--5481104	20	2.0	20	84	0	51	20	7	28	43	1.79
5482419--5482578	65	2.5	64	80	11	177	28	18	23	30	1.98
5482878--5482911	14	2.5	14	95	4	61	52	0	8	38	1.33
5484765--5484789	13	1.9	13	100	0	50	52	8	8	32	1.60
5488727--5488752	13	2.0	13	100	0	52	23	7	23	46	1.78
5494069--5494153	37	2.3	37	89	2	127	24	18	24	31	1.98
5494031--5494218	102	1.9	101	85	9	267	29	17	22	31	1.96
5500973--5501025	23	2.3	23	93	0	88	32	28	18	20	1.97
5503045--5503086	21	2.0	21	90	0	66	21	26	21	30	1.98
5503117--5503164	17	2.7	18	87	3	71	25	14	37	22	1.92
5504530--5506515	663	3.0	665	89	2	2942	35	17	15	30	1.91
5507454--5507500	17	2.8	17	87	6	60	34	4	4	57	1.38
5512779--5512826	22	2.2	22	88	0	69	39	22	18	18	1.92
5515118--5515176	31	1.9	31	86	6	84	42	23	11	22	1.86
5516993--5517056	20	3.2	20	80	8	85	12	17	37	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5517022--5517065	20	2.2	20	83	0	52	11	20	38	29	1.87
5519406--5519430	13	1.9	13	100	0	50	44	16	0	40	1.47
5519886--5519926	18	2.3	18	91	0	64	0	31	21	46	1.52
5527593--5527629	16	2.1	18	85	14	51	54	8	0	37	1.30
5527828--5527887	30	2.0	30	96	0	111	41	13	5	40	1.66
5528203--5528381	98	1.8	99	89	3	281	34	11	15	39	1.82
5529590--5529896	72	4.2	73	81	3	325	34	16	8	40	1.78
5530036--5530748	185	4.0	169	78	10	549	35	17	10	37	1.84
5530207--5530847	185	3.5	185	80	5	670	33	16	10	39	1.83
5530995--5531030	17	2.1	17	94	0	63	13	22	2	61	1.46
5531256--5531301	18	2.5	19	72	13	51	52	10	21	15	1.73
5532194--5532351	45	3.5	45	77	11	146	34	13	25	26	1.94
5538700--5538725	2	13.0	2	100	0	52	50	0	50	0	1.00
5546700--5546731	2	16.0	2	100	0	64	50	0	0	50	1.00
5547130--5547169	18	2.2	18	95	0	71	32	20	27	20	1.97
5551233--5551276	15	2.9	15	75	0	52	34	29	11	25	1.91
5553354--5553507	78	2.0	77	90	1	245	48	8	26	16	1.75
5563725--5563795	20	3.8	18	80	19	83	26	15	30	26	1.96
5564883--5564912	14	2.1	14	100	0	60	33	6	13	46	1.69
5564915--5564956	2	21.0	2	100	0	84	50	0	0	50	1.00
5568586--5568690	54	1.9	54	90	0	165	27	22	20	28	1.99
5568678--5569559	55	16.1	55	86	3	1143	35	18	18	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5569736--5569925	68	2.8	68	89	0	299	30	15	26	27	1.96
5571332--5571371	19	2.0	20	85	4	55	32	7	17	42	1.77
5577434--5577688	138	1.8	138	85	1	359	28	12	18	40	1.87
5582555--5582775	121	1.8	121	82	3	284	31	17	28	23	1.97
5582799--5582991	42	4.6	42	67	13	110	24	18	31	25	1.97
5582728--5583037	125	2.4	123	87	4	424	26	18	29	26	1.98
5589039--5589116	32	2.4	32	87	4	113	56	7	15	20	1.63
5592979--5593034	3	18.3	3	76	7	51	57	1	3	37	1.27
5609344--5609396	22	2.4	22	93	0	88	32	16	5	45	1.71
5613111--5613145	18	1.9	18	88	0	52	25	25	17	31	1.97
5614317--5614379	23	2.7	23	78	4	65	20	20	25	33	1.97
5614361--5614412	24	2.2	24	92	0	86	23	21	23	32	1.98
5616533--5616596	23	2.8	23	97	0	119	37	18	20	23	1.94
5621662--5621740	23	3.4	23	78	0	86	35	25	20	18	1.95
5625936--5625977	20	2.1	20	86	8	59	42	2	11	42	1.54
5626420--5626468	16	3.0	16	74	14	55	57	24	0	18	1.41
5628387--5628445	20	2.9	21	78	12	70	35	16	18	28	1.93
5629194--5629235	20	2.1	20	95	0	75	35	26	28	9	1.88
5644987--5645035	23	2.1	23	85	7	64	57	14	2	26	1.48
5648296--5648339	20	2.2	20	87	0	61	63	0	20	15	1.31
5655201--5655249	23	2.1	23	85	7	64	57	14	2	26	1.48
5661345--5661382	17	2.3	17	86	4	51	63	7	5	23	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5663818--5663884	3	22.3	3	79	11	66	67	0	1	31	1.00
5663835--5663884	13	4.0	13	89	5	77	68	0	2	30	1.01
5663836--5663884	16	3.1	16	82	8	64	69	0	2	28	1.00
5664117--5664149	16	2.0	17	88	5	50	21	15	18	45	1.85
5676347--5676389	12	3.6	12	78	9	52	30	0	2	67	1.03
5677080--5677179	16	6.2	16	66	4	67	53	27	5	15	1.62
5677074--5677143	32	2.2	32	78	0	77	54	28	5	11	1.59
5677085--5677183	32	3.1	32	85	5	119	50	27	5	17	1.66
5677708--5677746	17	2.3	17	95	0	69	41	5	2	51	1.38
5677785--5677809	4	6.2	4	100	0	50	76	0	0	24	0.80

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