genome.fa.s8053.2.7.7.80.10.50.1000.26.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  26  of  32  ( 3749 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)
5300551--5300854	152	2.0	152	100	0	608	40	9	9	40	1.69
5301013--5301128	60	1.9	60	80	0	133	33	10	9	46	1.70
5301364--5301396	15	2.2	15	100	0	66	51	27	6	15	1.66
5301794--5301850	29	2.0	29	86	6	80	15	31	28	24	1.96
5301951--5302021	33	2.2	33	81	0	79	12	35	25	26	1.92
5306514--5306548	2	17.5	2	100	0	70	0	51	0	48	1.00
5307788--5307819	13	2.3	15	89	10	50	6	25	0	68	1.12
5314567--5314682	24	4.8	24	88	6	164	23	17	18	40	1.91
5314619--5314692	24	3.1	24	86	3	78	21	16	18	43	1.88
5318569--5318605	16	2.3	16	95	0	65	27	16	27	29	1.97
5325178--5325206	12	2.3	13	94	5	51	58	0	0	41	0.98
5335350--5335388	16	2.5	16	84	15	55	56	2	0	41	1.13
5337731--5337798	34	2.0	34	97	0	127	35	2	13	48	1.57
5337736--5337796	17	3.6	17	69	8	52	34	3	13	49	1.58
5348897--5348936	16	2.7	16	88	11	59	27	5	5	62	1.37
5351152--5351191	21	1.9	21	84	0	53	75	2	12	10	1.15
5351769--5351811	18	2.5	17	85	7	61	67	2	4	25	1.22
5352168--5352272	37	2.8	37	85	0	138	29	14	15	40	1.86
5352205--5352268	21	3.3	21	62	20	57	28	14	15	42	1.86
5352964--5353582	105	6.0	105	91	2	957	22	16	27	34	1.95
5354229--5354381	67	2.3	65	83	6	184	37	9	22	30	1.86
5354229--5354407	67	2.7	66	79	6	166	39	8	22	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5354357--5354480	36	3.4	36	79	9	144	40	13	20	25	1.89
5355419--5355472	22	2.5	22	100	0	108	24	12	25	37	1.91
5356069--5356123	11	5.0	11	86	0	74	0	9	5	85	0.74
5356059--5356132	21	3.7	20	77	18	66	0	14	6	78	0.95
5356069--5356123	7	7.6	7	75	22	51	0	9	5	85	0.74
5359925--5360000	38	2.1	38	85	9	104	55	9	5	30	1.54
5360161--5360187	2	13.5	2	100	0	54	51	0	0	48	1.00
5360438--5360480	17	2.6	16	79	13	52	65	2	4	27	1.25
5360832--5360936	37	2.8	37	85	0	138	29	14	15	40	1.86
5360869--5360932	21	3.3	21	62	20	57	28	14	15	42	1.86
5361539--5361567	2	14.5	2	100	0	58	48	0	0	51	1.00
5362553--5362583	2	15.5	2	100	0	62	51	0	0	48	1.00
5362493--5362661	90	1.9	90	97	0	320	42	8	11	37	1.73
5366906--5366941	15	2.4	15	95	0	63	66	2	0	30	1.06
5367240--5367281	20	2.1	20	86	8	59	30	0	0	69	0.89
5367247--5367280	15	2.3	15	89	0	50	32	0	0	67	0.91
5370228--5370368	60	2.4	61	85	2	189	32	17	16	34	1.92
5378180--5378511	165	2.0	166	99	0	657	38	9	10	41	1.72
5380259--5380285	6	4.5	6	100	0	54	66	0	0	33	0.92
5381419--5381470	15	3.5	15	78	0	68	13	13	63	9	1.52
5381421--5381484	30	2.1	30	100	0	128	12	14	60	12	1.58
5381428--5381476	15	3.3	15	76	0	62	14	10	61	14	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5381436--5381484	15	3.3	15	76	0	62	10	14	61	14	1.57
5389548--5389586	14	2.8	13	88	11	51	23	2	2	71	1.10
5389546--5389588	18	2.5	17	81	7	52	25	2	2	69	1.12
5389989--5390021	2	16.5	2	100	0	66	48	0	0	51	1.00
5390073--5390106	9	3.8	9	92	7	52	20	2	0	76	0.92
5390073--5390107	13	2.6	14	90	4	54	20	2	0	77	0.90
5393115--5393168	23	2.4	23	90	9	85	81	5	12	0	0.85
5393113--5393174	22	2.9	22	79	13	67	77	8	14	0	0.98
5393115--5393186	7	9.9	7	77	14	65	80	5	12	1	0.94
5394681--5394790	37	3.0	37	87	2	150	26	21	12	39	1.89
5394801--5394887	37	2.4	37	82	5	97	25	22	12	39	1.90
5394699--5394988	102	2.9	102	91	0	465	29	22	12	36	1.90
5394902--5394971	36	1.9	36	85	0	95	27	21	12	38	1.90
5394917--5394988	36	2.0	36	83	0	90	26	23	12	37	1.90
5394930--5395088	67	2.4	67	87	4	223	32	22	11	33	1.90
5395922--5396994	105	10.3	104	90	4	1551	33	26	18	21	1.96
5395922--5396994	205	5.2	205	92	2	1621	33	26	18	21	1.96
5395922--5396994	310	3.4	312	90	4	1598	33	26	18	21	1.96
5397994--5398032	14	2.8	13	88	11	51	23	2	2	71	1.10
5397992--5398034	18	2.5	17	81	7	52	25	2	2	69	1.12
5398232--5398258	2	13.5	2	100	0	54	48	0	0	51	1.00
5398526--5398559	9	3.8	9	92	7	52	20	2	0	76	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5398526--5398560	13	2.6	14	90	4	54	20	2	0	77	0.90
5404113--5404276	82	2.0	82	85	2	222	29	21	15	33	1.94
5405149--5405186	17	2.2	17	100	0	76	28	18	0	52	1.45
5407392--5407439	25	1.9	25	91	0	78	45	10	0	43	1.38
5410805--5410866	3	20.7	3	96	0	115	33	1	0	64	1.03
5411359--5411406	23	2.0	23	88	11	71	72	10	16	0	1.10
5424773--5425330	83	6.7	83	89	5	851	27	12	22	37	1.91
5424773--5425330	165	3.3	166	91	4	894	27	12	22	37	1.91
5424773--5425331	248	2.2	253	91	4	904	27	12	22	37	1.91
5425973--5426596	221	2.8	218	81	10	714	36	13	19	29	1.91
5426730--5426815	3	29.0	3	90	6	140	34	1	0	63	1.02
5429274--5429301	2	14.0	2	100	0	56	50	0	0	50	1.00
5431043--5431084	2	21.5	2	83	13	52	42	2	2	52	1.27
5434005--5434051	16	3.0	16	76	17	53	61	0	2	36	1.08
5434039--5434082	15	2.9	14	81	15	52	38	0	4	56	1.20
5435496--5435946	229	2.0	225	85	1	614	29	18	22	29	1.97
5435938--5437905	989	2.0	977	92	2	3241	40	14	10	34	1.80
5438050--5438310	129	2.0	129	98	0	504	47	8	11	31	1.70
5441283--5441392	55	2.0	55	100	0	220	29	16	7	47	1.73
5442626--5442669	21	2.0	21	91	4	70	15	13	43	27	1.85
5442667--5442793	21	6.0	21	88	0	182	20	10	48	21	1.79
5444371--5444449	33	2.7	27	75	20	95	27	12	39	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5444388--5444521	33	3.9	33	80	11	160	30	12	35	20	1.90
5444441--5444565	42	3.0	42	83	4	175	28	12	39	20	1.88
5444492--5444559	21	3.2	21	66	22	61	27	10	41	20	1.85
5444500--5444573	18	3.8	18	70	19	58	28	12	40	18	1.87
5445657--5445716	29	2.1	28	90	3	93	70	0	3	26	1.03
5446977--5447034	3	19.0	3	80	16	66	65	0	0	34	0.93
5446977--5447034	19	3.2	18	83	9	73	65	0	0	34	0.93
5446977--5447034	28	2.1	27	90	9	91	65	0	0	34	0.93
5447284--5448031	113	6.3	124	78	11	591	28	17	13	40	1.88
5447498--5448285	113	6.9	112	85	7	937	29	17	13	38	1.89
5447371--5448161	347	2.3	348	87	3	1099	29	17	13	38	1.88
5447250--5448272	460	2.2	465	84	6	1331	29	17	13	38	1.89
5448693--5448747	22	2.5	22	87	0	83	36	14	14	34	1.87
5449119--5449320	54	3.8	54	87	6	290	25	22	14	37	1.92
5449787--5449873	43	2.0	43	100	0	174	40	18	18	22	1.91
5451439--5451782	115	3.0	115	93	1	564	30	20	15	33	1.94
5454038--5454074	12	2.9	13	88	8	58	0	13	2	83	0.74
5454619--5454672	14	3.8	14	80	2	54	50	9	14	25	1.73
5457123--5457180	24	2.4	25	81	18	70	65	1	1	31	1.13
5457397--5457424	2	14.0	2	100	0	56	50	0	0	50	1.00
5458484--5458517	10	3.2	10	91	8	50	73	0	0	26	0.83
5459515--5459709	40	4.7	40	78	6	183	31	15	17	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5459450--5459715	41	6.4	42	76	4	198	31	16	17	34	1.92
5459498--5459707	83	2.5	82	77	3	224	31	16	17	35	1.92
5462148--5462215	27	2.5	27	87	0	100	13	17	25	44	1.85
5462465--5462499	2	18.5	2	88	11	56	51	0	0	48	1.00
5462465--5462498	15	2.3	15	100	0	68	52	0	0	47	1.00
5462471--5462496	13	2.0	13	100	0	52	53	0	0	46	1.00
5462889--5462954	31	2.1	31	85	0	87	56	12	9	22	1.64
5474205--5474245	16	2.6	16	88	3	57	29	21	12	36	1.90
5486813--5486887	31	2.4	31	97	0	141	42	18	12	26	1.85
5487114--5487322	20	10.3	20	78	7	154	27	24	19	28	1.98

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