genome.fa.s8620.2.7.7.80.10.50.1000.25.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   63   64   

This is table  25  of  64  ( 7674 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)
4944972--4945015	3	14.7	3	100	0	88	65	0	0	34	0.93
4945487--4945557	31	2.3	31	92	2	117	35	25	1	38	1.65
4945863--4945920	20	2.6	22	76	20	59	24	25	18	31	1.98
4953269--4953330	27	2.3	27	88	0	88	24	25	14	35	1.93
4953269--4953330	14	4.6	13	84	6	79	24	25	14	35	1.93
4956757--4957153	3	133.7	3	68	11	93	36	7	4	51	1.50
4956813--4956930	14	8.4	13	73	18	69	38	4	4	52	1.40
4956965--4957016	20	2.6	20	84	6	61	36	7	1	53	1.41
4956971--4957015	17	2.6	17	85	0	54	35	8	2	53	1.45
4956985--4957052	31	2.2	31	81	2	82	32	13	2	51	1.56
4957077--4957119	17	2.6	16	82	7	50	37	4	2	55	1.33
4962422--4962479	28	2.1	27	84	6	73	32	5	1	60	1.29
4964071--4964130	27	2.3	26	82	2	75	23	13	6	56	1.60
4965714--4965773	2	31.5	2	90	9	99	50	0	0	50	1.00
4967045--4967453	203	2.0	204	99	0	811	34	16	19	29	1.94
4970849--4970922	21	3.5	22	94	5	134	33	12	14	39	1.84
4971578--4972423	148	5.7	151	91	4	1352	24	19	22	33	1.97
4971578--4972423	73	11.4	75	90	5	1348	24	19	22	33	1.97
4971578--4972423	297	2.8	297	91	5	1365	24	19	22	33	1.97
4972551--4972606	3	18.7	3	81	7	69	37	0	1	60	1.07
4973978--4974007	15	2.0	15	93	0	51	36	3	6	53	1.44
4974130--4974170	4	10.5	4	80	15	50	24	2	0	73	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4974327--4974357	2	15.5	2	100	0	62	48	0	0	51	1.00
4974230--4974600	144	2.6	146	82	6	418	39	7	8	45	1.63
4974607--4974645	18	2.2	17	86	4	51	41	0	0	58	0.98
4974593--4974645	26	2.0	26	82	7	63	41	0	0	58	0.98
4976618--4976661	18	2.5	18	82	10	56	38	6	15	38	1.75
4977744--4977817	30	2.5	30	84	0	94	31	24	10	33	1.90
4977711--4977890	34	5.8	30	83	6	132	30	26	12	30	1.93
4977801--4977890	34	2.6	34	98	0	171	32	25	12	30	1.92
4977927--4977994	34	2.0	34	100	0	136	26	32	8	32	1.87
4978397--4978439	19	2.3	19	83	0	50	46	13	20	18	1.83
4982280--4982320	15	2.7	16	85	7	59	7	12	0	80	0.90
4982239--4982325	8	10.9	8	70	14	54	8	16	0	75	1.02
4983603--4983631	14	2.1	14	100	0	58	13	34	13	37	1.85
4986180--4986266	37	2.4	37	96	0	156	29	13	9	47	1.74
4986352--4986397	13	3.6	12	85	11	56	43	50	0	6	1.28
4986350--4986400	19	2.6	19	84	9	68	43	49	0	7	1.32
4986352--4986397	6	7.2	6	87	7	56	43	50	0	6	1.28
4986353--4986414	20	3.2	19	80	17	65	46	43	0	9	1.36
4986385--4986462	34	2.3	35	80	10	99	50	29	2	17	1.60
4987048--4987145	25	3.9	25	89	0	142	62	11	0	26	1.29
4988197--4988245	14	3.5	14	78	10	55	28	0	12	59	1.34
4988539--4988586	3	15.3	3	86	4	51	25	0	6	68	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4988561--4988592	15	2.1	15	94	0	55	15	0	15	68	1.21
4989427--4989466	18	2.3	18	95	4	73	10	45	30	15	1.78
4997598--4997689	45	2.0	45	100	0	184	39	6	10	43	1.66
4998747--4999269	233	2.2	233	84	2	665	32	16	16	34	1.91
4999730--4999826	42	2.3	40	82	6	122	25	24	18	30	1.98
4999493--5000704	232	5.2	233	86	2	1577	32	16	17	33	1.92
4999493--5000702	463	2.6	464	86	4	1656	32	16	17	33	1.92
5002728--5003103	136	2.8	134	78	4	391	31	11	14	41	1.82
5003518--5003870	173	2.0	177	97	2	669	36	15	8	38	1.79
5007238--5007316	21	3.8	21	81	0	86	30	15	17	36	1.91
5011228--5011280	13	4.0	13	77	20	56	26	7	13	52	1.66
5014244--5014288	3	14.7	3	86	4	63	62	2	2	33	1.20
5015643--5015685	20	2.2	20	86	0	59	53	2	6	37	1.41
5017923--5017962	21	1.9	21	85	10	55	60	2	0	37	1.11
5018696--5019032	21	15.5	21	89	6	437	28	23	23	24	2.00
5018786--5018865	27	3.0	27	96	0	142	23	25	23	27	2.00
5019028--5019160	21	6.5	21	79	10	141	24	19	24	32	1.98
5018898--5019120	63	3.6	63	83	6	172	26	21	23	28	1.99
5019020--5019137	62	1.9	61	85	1	164	24	20	22	33	1.97
5019257--5019303	11	4.3	11	94	5	78	27	53	19	0	1.45
5019253--5019300	6	8.5	6	93	6	75	29	54	16	0	1.43
5019804--5019830	6	4.5	6	100	0	54	0	14	51	33	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5019913--5020210	42	7.1	42	91	1	472	37	22	17	22	1.94
5021217--5021279	30	2.1	30	82	2	74	36	4	19	39	1.72
5026185--5026354	88	1.9	89	98	1	333	31	19	17	31	1.95
5026698--5026763	30	2.2	31	81	10	84	42	4	15	37	1.67
5028684--5028779	39	2.5	39	78	0	102	19	27	23	29	1.99
5031745--5031783	20	1.9	20	84	5	51	53	2	5	38	1.37
5031752--5031790	20	2.0	20	89	0	60	51	2	5	41	1.38
5045428--5045524	48	2.0	48	95	0	176	37	20	4	38	1.72
5048404--5048526	32	3.8	32	81	2	86	26	24	29	20	1.99
5048442--5048531	32	2.8	32	86	0	126	25	28	28	16	1.97
5057506--5057531	7	3.7	7	100	0	52	88	0	0	11	0.52
5057498--5057532	14	2.5	13	86	13	52	88	2	0	8	0.61
5059804--5059861	27	2.1	27	87	0	80	13	1	34	50	1.52
5065120--5065159	21	1.9	21	89	0	62	10	25	40	25	1.86
5069013--5069052	21	1.9	21	85	10	55	35	10	2	52	1.48
5072800--5072889	32	2.8	32	86	3	128	26	26	26	20	1.99
5078447--5078480	18	2.0	18	88	11	54	70	2	14	11	1.27
5078447--5078490	16	2.6	17	83	13	56	65	2	18	13	1.36
5089329--5089501	57	3.1	57	76	13	153	31	8	17	42	1.80
5089553--5089657	42	2.5	41	81	4	122	25	19	22	32	1.97
5089821--5090083	136	1.9	137	85	2	359	33	17	22	26	1.96
5090111--5090357	39	6.4	39	88	0	370	31	17	15	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5090205--5090265	19	3.2	19	64	13	52	34	18	14	32	1.91
5090376--5090496	60	2.0	60	85	4	163	33	31	11	23	1.91
5090873--5090934	23	2.7	23	87	5	90	45	30	6	17	1.74
5091355--5091388	7	4.7	7	96	3	59	41	0	0	58	0.98
5091355--5091397	22	2.0	22	86	9	61	39	2	2	55	1.25
5092282--5092337	18	3.1	18	80	10	69	19	1	5	73	1.12
5092292--5092362	25	2.8	25	79	12	65	25	1	2	70	1.09
5092286--5092365	36	2.2	37	82	6	92	23	1	2	72	1.04
5092330--5092365	15	2.4	15	86	13	56	30	0	0	69	0.89
5093814--5093858	23	2.0	23	86	0	63	31	42	8	17	1.80
5094660--5094705	20	2.3	19	78	10	56	54	10	15	19	1.70
5096512--5096566	24	2.5	22	81	18	62	49	0	3	47	1.19
5096844--5096876	15	2.2	15	100	0	66	18	6	63	12	1.48
5097035--5097100	33	2.0	33	100	0	132	30	0	45	24	1.53
5098297--5098321	4	6.2	4	100	0	50	24	0	28	48	1.52
5098822--5098884	28	2.2	30	83	11	87	53	12	20	12	1.71
5098899--5098947	19	2.6	19	96	0	89	34	0	8	57	1.29
5099202--5099743	201	2.7	201	94	0	940	36	14	15	33	1.89
5102568--5103021	251	1.8	251	86	3	664	36	14	16	31	1.90
5102766--5103323	198	2.8	197	88	3	805	38	14	16	30	1.89
5102763--5103323	200	2.8	200	87	2	817	37	14	16	30	1.89
5105854--5106584	200	3.6	197	82	7	780	39	13	16	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5106663--5106707	23	2.0	23	90	0	72	37	17	8	35	1.81
5106579--5106741	87	1.9	87	96	0	299	32	13	12	41	1.81
5109421--5109445	2	12.5	2	100	0	50	48	0	52	0	1.00
5111023--5111067	20	2.1	22	88	8	67	55	2	4	37	1.32
5112155--5112197	23	1.9	22	90	4	68	23	0	4	72	1.04
5112621--5112661	11	3.8	11	83	3	57	39	2	0	58	1.11
5112628--5112670	21	2.0	22	86	4	61	41	4	0	53	1.21
5112764--5112805	21	2.0	21	95	0	75	50	38	11	0	1.40
5117689--5117841	60	2.5	60	84	0	216	23	20	21	33	1.97
5117689--5117837	20	7.4	20	86	0	190	23	20	22	34	1.97

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   63   64