genome.fa.s9639.2.7.7.80.10.50.1000.55.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  55  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)
13141884--13142043	65	2.5	63	85	6	205	30	23	19	27	1.98
13143857--13143886	15	2.0	15	100	0	60	40	20	6	33	1.78
13152254--13152292	16	2.5	16	95	4	71	58	0	15	25	1.37
13152417--13152449	17	1.9	17	93	0	57	18	27	0	54	1.44
13152911--13152956	11	4.3	11	81	10	51	45	0	2	52	1.13
13152919--13152976	20	2.7	21	82	17	59	44	3	0	51	1.18
13153361--13153408	23	2.1	23	88	0	69	35	12	18	33	1.89
13153885--13153957	23	3.2	23	92	0	110	38	23	4	34	1.74
13154330--13154388	23	2.6	23	88	0	82	38	16	5	38	1.71
13153719--13155021	430	3.0	431	97	0	2461	39	12	7	40	1.71
13154756--13154818	23	2.7	23	90	0	90	38	20	3	38	1.69
13155171--13155235	25	2.6	25	97	0	121	36	12	10	40	1.78
13156938--13157594	183	3.6	182	98	0	1242	33	17	14	34	1.91
13157987--13158045	23	2.6	23	88	0	82	40	16	5	37	1.71
13157633--13158683	432	2.5	427	97	1	1966	39	11	7	41	1.71
13158415--13158477	23	2.7	23	92	0	99	38	20	4	36	1.74
13158836--13158869	16	2.1	16	94	0	59	26	20	5	47	1.73
13160063--13160143	3	27.0	3	79	0	90	24	33	6	35	1.81
13160079--13160160	36	2.3	36	91	0	128	20	32	8	37	1.83
13160067--13160160	12	7.8	12	86	0	98	22	32	7	37	1.82
13160097--13160160	18	3.6	18	75	8	67	18	32	9	39	1.83
13161570--13161622	24	2.2	24	83	6	63	26	7	13	52	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13161762--13161804	20	2.3	18	85	14	61	20	16	11	51	1.75
13161767--13161813	20	2.4	19	82	10	67	19	17	10	53	1.72
13161947--13161993	20	2.3	20	86	10	69	19	17	8	55	1.67
13161734--13162205	180	2.6	180	90	1	730	26	17	13	42	1.87
13162272--13162766	229	2.2	228	96	1	911	39	8	8	44	1.64
13165082--13165180	39	2.5	40	83	4	121	20	21	12	46	1.82
13164943--13165316	179	2.1	175	82	5	441	24	20	16	38	1.92
13165124--13165472	136	2.6	136	87	0	520	25	20	17	37	1.93
13166427--13166569	42	3.4	42	79	6	141	30	20	23	25	1.98
13166494--13166569	20	3.7	20	75	13	82	30	21	23	25	1.99
13166682--13166797	42	2.8	41	76	5	117	30	21	21	26	1.98
13166847--13167089	52	4.5	53	81	7	242	41	18	9	31	1.82
13166847--13167089	105	2.3	107	80	8	262	41	18	9	31	1.82
13167096--13167210	39	3.1	38	83	12	141	38	15	14	31	1.88
13167110--13167477	36	10.1	36	83	3	281	39	13	20	26	1.90
13167139--13167542	72	5.6	72	80	2	351	38	12	20	27	1.89
13167139--13167579	108	4.0	108	80	3	384	38	12	20	28	1.89
13167475--13167611	37	3.7	37	89	1	193	40	8	18	31	1.82
13167513--13167577	20	3.4	21	64	22	52	41	12	18	27	1.86
13167666--13167790	37	3.3	38	70	14	89	38	8	17	35	1.81
13167666--13167793	36	3.4	37	70	13	91	37	8	17	35	1.81
13167710--13167829	36	3.3	35	71	20	93	33	10	16	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13167953--13168066	37	3.1	37	80	11	142	41	8	17	32	1.80
13169460--13169490	4	7.8	4	100	0	62	51	22	0	25	1.48
13174499--13174644	20	7.3	20	96	0	265	16	28	24	30	1.96
13176580--13176622	19	2.3	19	95	0	77	39	4	18	37	1.72
13177987--13178085	21	4.7	21	84	12	132	22	37	20	20	1.95
13178105--13178150	20	2.3	20	88	0	74	15	23	26	34	1.94
13178524--13178593	34	2.1	32	84	5	86	34	12	30	22	1.92
13180736--13180789	21	2.6	21	96	0	99	29	22	9	38	1.85
13184984--13185021	20	1.9	20	88	0	58	21	26	10	42	1.85
13187502--13187670	60	2.8	59	83	4	180	34	20	3	40	1.70
13198305--13198348	20	2.1	21	87	8	63	61	9	9	20	1.53
13201155--13201269	40	2.9	39	97	1	212	22	17	26	33	1.96
13201374--13201499	47	2.8	45	88	5	182	37	7	23	30	1.84
13203308--13203718	105	3.9	105	87	2	553	23	20	17	38	1.93
13203808--13204294	136	3.6	136	87	0	674	24	20	17	36	1.94
13205269--13205382	42	2.7	41	78	9	140	29	19	21	28	1.98
13205419--13205980	53	10.5	53	83	5	625	41	19	9	29	1.82
13208027--13208083	9	6.9	9	86	8	52	7	14	1	77	1.06
13208022--13208081	8	7.4	8	83	10	52	6	15	1	76	1.06
13208043--13208072	7	4.1	7	95	4	51	13	3	0	83	0.77
13208076--13208124	11	4.4	10	83	16	53	2	20	0	77	0.87
13208070--13208124	24	2.3	24	82	14	62	1	20	1	76	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13208045--13208134	11	8.0	11	69	16	51	5	14	1	78	0.98
13208415--13208454	2	20.0	2	100	0	80	50	0	0	50	1.00
13212009--13212082	23	3.4	22	70	17	64	66	2	10	20	1.35
13212022--13212088	14	4.7	14	72	17	57	65	1	10	22	1.31
13212022--13212101	14	5.6	14	73	14	56	63	1	11	23	1.34
13215247--13215303	13	4.2	12	76	24	51	75	3	17	3	1.09
13219314--13219370	13	4.2	12	76	24	51	75	1	17	5	1.07
13225588--13225687	50	2.0	51	86	2	139	19	22	24	35	1.96
13229881--13229921	17	2.5	17	84	4	57	75	4	17	2	1.08
13233924--13233964	19	2.3	19	87	8	59	24	29	17	29	1.97
13235800--13235825	3	8.7	3	100	0	52	34	0	30	34	1.58
13241025--13241068	21	2.1	21	82	0	52	9	34	15	40	1.79
13241677--13241738	31	2.0	31	100	0	124	25	3	35	35	1.72
13242118--13242165	19	2.6	17	80	9	51	29	29	14	27	1.95
13246606--13246707	17	5.9	17	73	15	75	41	8	10	39	1.71
13246819--13246880	26	2.4	26	94	0	115	43	22	9	24	1.83
13246829--13246877	16	3.4	16	69	30	56	42	24	10	22	1.84
13263041--13263083	23	1.9	21	81	13	50	32	18	13	34	1.90
13264787--13264969	91	2.0	91	90	0	285	21	27	21	28	1.99
13269473--13269538	19	3.4	18	80	13	60	6	16	1	75	1.07
13269794--13269843	20	2.5	20	78	15	59	68	0	8	24	1.16
13279570--13279612	23	1.9	21	81	13	50	32	18	13	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13283954--13284225	135	2.0	137	98	1	530	37	11	14	36	1.83
13293013--13293048	18	2.0	18	88	0	54	30	13	13	41	1.84
13294795--13294845	27	1.9	27	84	4	68	7	15	15	60	1.56
13294795--13294851	27	2.1	27	80	6	62	10	15	14	59	1.60
13295485--13295525	22	1.9	21	90	5	64	26	2	36	34	1.70
13301987--13302014	12	2.3	12	100	0	56	0	7	0	92	0.37
13301984--13302021	17	2.2	18	85	4	51	5	10	0	84	0.77
13302421--13303455	516	2.0	516	100	0	2070	38	16	16	28	1.91
13307656--13307706	19	2.6	20	87	3	68	45	5	15	33	1.71
13313387--13313449	29	2.3	27	84	13	76	6	14	4	74	1.18
13313402--13313453	21	2.5	22	81	9	63	5	15	3	75	1.14
13313695--13313734	21	1.9	21	85	10	55	62	0	17	20	1.33
13319376--13319447	36	2.0	36	94	0	126	23	22	22	31	1.98
13323253--13323302	19	2.6	20	84	12	61	64	0	12	24	1.27
13323723--13323773	19	2.6	20	90	3	77	43	5	15	35	1.71
13324683--13324742	30	2.0	31	83	3	77	55	10	8	26	1.61
13327161--13327185	8	3.1	8	100	0	50	0	24	0	76	0.80
13327446--13327495	19	2.6	20	84	12	61	64	0	12	24	1.27
13327916--13327966	19	2.6	20	93	3	86	45	5	13	35	1.68
13328874--13328933	30	2.0	31	83	3	77	55	10	8	26	1.61
13332178--13332202	11	2.3	11	100	0	50	48	16	24	12	1.79
13342752--13342792	17	2.4	18	84	12	59	17	12	0	70	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13342996--13343036	10	4.2	10	81	12	50	80	2	17	0	0.82
13342990--13343038	17	2.8	17	81	12	55	77	4	18	0	0.92
13344342--13344401	30	2.0	31	86	3	86	28	8	10	53	1.63
13345140--13345200	29	2.1	30	96	3	115	39	29	18	13	1.88
13345288--13345339	21	2.6	21	90	6	81	34	13	5	46	1.67
13346061--13346122	6	10.8	6	75	13	51	79	3	14	3	0.99
13346057--13346135	34	2.3	34	81	16	92	75	5	13	5	1.13
13348541--13348579	20	2.0	20	90	10	62	25	7	5	61	1.44
13358412--13358436	12	2.1	12	100	0	50	20	32	8	40	1.81
13366690--13366788	24	4.2	24	66	12	69	56	0	17	26	1.41

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