genome.fa.s7923.2.7.7.80.10.50.1000.25.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  25  of  40  ( 4704 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)
5043566--5044064	178	2.8	181	91	7	837	28	12	13	45	1.80
5043566--5044064	177	2.8	182	92	6	839	28	12	13	45	1.80
5043742--5043924	64	2.8	65	90	8	293	28	12	12	46	1.78
5043873--5043976	49	2.1	50	92	5	176	25	12	14	48	1.79
5043885--5043989	50	2.1	49	82	8	124	28	13	13	44	1.81
5043806--5044037	113	2.0	114	90	7	366	27	13	13	46	1.80
5043920--5044064	64	2.3	64	91	4	231	27	13	13	44	1.82
5044263--5044339	37	2.0	39	92	7	131	29	23	11	35	1.90
5044783--5044914	64	2.0	64	80	7	142	24	22	13	39	1.90
5044814--5044938	64	2.0	64	84	6	164	24	20	12	42	1.87
5044946--5045009	27	2.3	27	81	2	74	28	12	14	45	1.81
5045113--5045308	42	4.6	41	71	15	139	26	31	19	23	1.98
5045022--5045363	129	2.7	129	95	2	600	26	29	19	24	1.98
5045606--5045662	3	19.0	3	100	0	114	33	0	0	66	0.92
5045834--5045879	25	2.0	22	87	12	65	17	47	13	21	1.81
5051091--5051164	31	2.4	31	86	0	103	33	13	24	28	1.93
5057275--5057368	49	1.9	48	95	2	170	47	2	10	39	1.50
5059691--5059772	26	3.2	26	75	1	76	31	6	19	42	1.76
5063440--5063805	84	4.4	84	89	0	525	22	19	23	34	1.96
5063905--5064293	124	3.1	124	85	3	500	27	15	25	31	1.96
5064284--5064490	64	3.3	63	82	5	249	31	12	20	35	1.90
5065667--5065691	12	2.1	12	100	0	50	40	16	0	44	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5066382--5066431	20	2.5	19	78	12	64	22	6	8	64	1.43
5066667--5066724	26	2.2	26	84	0	71	22	8	3	65	1.36
5066689--5066741	26	2.0	25	85	10	70	22	9	0	67	1.19
5068909--5068962	22	2.6	20	78	16	65	57	9	9	24	1.59
5070012--5070164	81	1.9	83	82	5	195	24	16	23	35	1.95
5070209--5070437	124	1.9	122	85	6	318	27	16	23	32	1.96
5070427--5070636	64	3.3	64	89	2	307	29	11	22	36	1.90
5072750--5072935	93	2.0	92	94	1	327	45	15	9	29	1.78
5074733--5074758	7	3.7	7	100	0	52	42	0	0	57	0.98
5078538--5078642	37	2.8	37	83	0	138	43	11	13	31	1.79
5079093--5079132	21	1.9	21	84	0	53	40	0	0	60	0.97
5079076--5079134	17	3.6	17	75	13	52	38	0	1	59	1.08
5079386--5079491	2	54.5	2	94	5	191	49	0	0	50	1.00
5084207--5084288	7	11.6	7	76	12	69	80	4	13	1	0.93
5084207--5084288	20	3.9	19	76	16	65	80	4	13	1	0.93
5084213--5084288	24	3.1	23	83	9	80	80	5	13	1	0.95
5084201--5084265	10	6.2	10	74	20	53	80	4	15	0	0.88
5084215--5084274	19	3.2	19	75	15	54	80	5	15	0	0.88
5084204--5084288	13	6.1	13	72	18	64	80	5	12	1	0.96
5085847--5086431	105	5.6	105	91	4	943	33	25	18	21	1.96
5086409--5086463	27	2.0	28	92	3	94	30	27	14	27	1.95
5086303--5086562	131	2.0	132	89	3	398	33	25	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5086436--5086721	103	2.8	103	86	5	390	34	24	17	23	1.96
5086666--5086778	56	2.1	56	91	3	185	37	23	16	23	1.94
5086720--5086967	105	2.4	99	85	6	311	32	23	19	24	1.97
5087686--5087780	36	2.6	37	88	5	140	42	16	10	30	1.82
5088405--5088497	27	3.3	26	77	21	75	34	2	2	61	1.20
5088436--5088498	32	2.0	32	84	12	85	38	1	0	60	1.07
5088457--5088526	27	2.6	26	84	6	77	37	2	0	60	1.12
5088494--5088537	22	2.0	22	86	0	61	29	4	0	65	1.12
5089248--5089373	39	3.2	40	83	5	159	36	25	7	30	1.84
5093843--5093868	13	2.0	13	100	0	52	23	30	30	15	1.95
5093858--5093890	17	1.9	17	100	0	66	12	24	45	18	1.83
5093839--5093868	7	4.4	7	91	8	53	23	30	30	16	1.96
5093870--5093902	12	2.8	12	95	0	57	15	24	42	18	1.88
5093845--5093910	29	2.2	30	91	2	107	18	25	39	16	1.91
5093858--5093910	17	3.4	17	73	24	62	16	24	41	16	1.89
5093904--5093994	19	4.7	19	86	9	121	27	29	25	17	1.97
5093906--5093994	10	9.1	10	77	11	87	28	30	23	17	1.97
5101170--5101206	13	2.7	14	91	8	67	24	29	29	16	1.96
5101196--5101253	17	3.4	17	97	0	107	15	24	43	17	1.87
5101170--5101206	7	5.4	7	93	6	67	24	29	29	16	1.96
5101263--5101316	9	5.7	9	79	12	63	29	29	24	16	1.97
5101247--5101317	19	3.7	19	86	1	88	28	29	23	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5104456--5104485	2	15.0	2	100	0	60	50	0	0	50	1.00
5105249--5105307	24	2.4	25	80	11	68	38	3	6	50	1.45
5106246--5106293	3	16.0	3	91	0	78	31	2	0	66	1.03
5106231--5106288	18	3.2	19	88	9	70	27	1	0	70	0.97
5106358--5106399	13	3.2	13	83	12	59	38	2	0	59	1.10
5108067--5108101	2	17.5	2	100	0	70	51	0	0	48	1.00
5113499--5113582	28	3.0	28	98	0	159	34	3	25	36	1.73
5122274--5122305	2	16.0	2	100	0	64	50	0	0	50	1.00
5123890--5123961	30	2.4	30	97	0	135	47	2	43	6	1.45
5128765--5128800	10	3.5	11	85	14	51	63	0	0	36	0.94
5129491--5129529	20	1.9	21	89	5	62	46	23	15	15	1.83
5129458--5130115	182	3.6	183	88	1	932	43	14	16	25	1.85
5130504--5130548	19	2.4	19	92	3	74	42	0	20	37	1.52
5130799--5130837	18	2.2	18	86	9	53	46	5	7	41	1.55
5131799--5131854	24	2.5	22	77	13	60	41	1	7	50	1.40
5132541--5132588	18	2.7	18	80	3	62	50	0	43	6	1.27
5133600--5133631	14	2.3	14	100	0	64	25	9	21	43	1.82
5134317--5134875	199	2.8	199	96	0	1019	41	14	15	28	1.87
5136034--5136079	18	2.7	17	86	6	58	34	4	30	30	1.77
5136673--5136734	28	2.2	28	94	2	108	43	32	9	14	1.78
5136636--5137131	211	2.3	213	87	8	687	36	28	11	23	1.89
5137602--5137635	14	2.4	14	100	0	68	11	0	0	88	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5138875--5138908	3	11.3	3	93	0	59	0	35	2	61	1.11
5140341--5140385	21	2.2	21	84	11	58	42	4	4	48	1.43
5141617--5141757	70	2.0	70	100	0	282	39	18	19	22	1.93
5142235--5142260	7	3.7	7	100	0	52	46	11	0	42	1.40
5142836--5143203	184	2.0	184	91	1	605	43	2	8	45	1.50
5146745--5146801	29	1.9	30	89	3	89	15	12	21	50	1.76
5150286--5150419	69	1.9	70	89	1	207	53	5	2	38	1.39
5150296--5150383	41	2.1	43	82	4	108	54	3	3	38	1.34
5157671--5157711	12	3.3	13	80	13	50	46	0	17	36	1.48
5157904--5157948	23	2.0	23	90	0	72	17	28	26	26	1.98
5157905--5157955	23	2.2	23	85	0	66	19	29	23	27	1.98
5163464--5163508	14	3.1	14	83	6	54	66	4	2	26	1.22
5163948--5164005	14	4.2	14	74	12	57	53	5	3	37	1.40
5169008--5169476	222	2.1	220	92	5	770	44	7	8	39	1.63
5169525--5169571	20	2.4	19	89	10	76	55	10	17	17	1.69
5169695--5169750	20	2.8	19	76	7	58	55	8	14	21	1.66
5171962--5172005	21	2.1	21	91	0	70	40	11	31	15	1.83
5173869--5173917	19	2.6	19	93	0	80	30	2	10	57	1.43
5174036--5175003	199	4.9	199	96	1	1770	37	15	16	30	1.90
5176452--5176482	12	2.6	12	100	0	62	35	12	35	16	1.87
5176476--5176517	3	14.0	3	84	0	57	38	2	33	26	1.69
5176452--5176516	12	5.4	12	88	0	58	36	7	33	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5177702--5177735	16	2.1	16	88	0	50	47	8	20	23	1.78
5178119--5178594	179	2.7	179	89	6	736	34	14	17	33	1.90
5181042--5181106	25	2.6	25	80	0	85	35	9	13	41	1.77
5181443--5181515	23	3.2	23	84	0	92	34	4	20	41	1.72
5181770--5181821	24	2.2	24	86	3	70	32	7	21	38	1.82
5182199--5182235	18	2.1	18	89	0	56	32	5	10	51	1.60
5182191--5182237	24	2.0	24	86	0	67	34	4	14	46	1.64
5182487--5182573	39	2.2	39	93	0	147	48	19	13	18	1.81
5182988--5183045	23	2.6	23	91	2	91	37	5	18	37	1.74
5183401--5183459	23	2.6	23	91	0	91	37	5	18	38	1.73

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