genome.fa.s8356.2.7.7.80.10.50.1000.25.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  25  of  56  ( 6656 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)
5080127--5080169	22	2.0	22	86	9	61	74	9	2	13	1.16
5081539--5081648	41	2.7	39	83	9	114	31	19	16	32	1.94
5084240--5084362	66	1.9	63	86	8	176	29	20	18	31	1.96
5090157--5090213	24	2.6	21	76	15	69	28	22	19	29	1.98
5092883--5093033	64	2.4	64	87	4	225	29	22	17	30	1.97
5094075--5094181	31	3.4	31	75	11	110	31	16	19	31	1.94
5098328--5098452	31	4.0	31	79	13	112	32	20	17	28	1.96
5102369--5102400	12	2.4	14	90	10	50	37	28	0	34	1.57
5102572--5102638	30	2.2	31	83	2	82	34	28	17	19	1.95
5102630--5102722	31	2.9	31	74	19	93	30	19	17	33	1.95
5107141--5107191	19	2.6	20	84	3	68	45	21	17	15	1.86
5107178--5107231	20	2.7	20	88	0	81	51	16	18	12	1.75
5107380--5107436	6	9.5	6	100	0	114	0	15	50	33	1.44
5107514--5107557	20	2.2	20	91	0	70	11	18	15	54	1.70
5107546--5107775	20	11.3	20	84	6	248	22	24	16	36	1.94
5107554--5107767	101	2.1	101	92	1	347	22	24	15	36	1.93
5107789--5107842	20	2.7	20	94	0	90	11	18	18	51	1.74
5109753--5109820	28	2.4	28	82	0	91	29	19	16	35	1.93
5114848--5114876	2	14.5	2	100	0	58	51	0	0	48	1.00
5118533--5118579	23	2.0	24	91	4	78	23	25	14	36	1.93
5122274--5122471	76	2.6	76	94	1	344	26	1	12	60	1.41
5122249--5122471	76	2.9	77	90	5	342	28	1	12	58	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5123097--5123138	16	2.6	16	79	20	52	21	0	2	76	0.90
5123198--5123243	19	2.3	20	88	3	67	21	6	0	71	1.08
5123274--5123315	21	2.0	22	86	13	61	50	16	0	33	1.46
5128641--5128696	5	11.4	5	74	11	53	16	5	1	76	1.05
5128638--5128693	18	3.3	17	82	7	69	16	5	1	76	1.05
5131244--5131293	19	2.5	20	83	6	66	20	8	0	72	1.10
5140731--5140786	22	2.5	22	88	0	85	28	12	14	44	1.81
5147173--5147202	2	15.5	2	93	6	53	46	0	0	53	1.00
5147237--5147292	21	2.8	21	79	20	66	26	5	0	67	1.11
5158044--5158131	44	2.0	44	90	0	140	42	18	25	14	1.88
5158910--5159688	98	7.8	98	93	3	1271	33	24	19	21	1.97
5159500--5159735	106	2.2	106	88	0	337	33	25	19	22	1.97
5177887--5178046	74	2.1	75	90	4	261	20	18	29	31	1.96
5181461--5181575	35	3.2	34	85	8	88	31	6	19	42	1.77
5181482--5181542	21	3.2	21	65	29	64	31	4	21	42	1.74
5181474--5181593	35	3.3	36	89	6	181	31	5	20	43	1.73
5186055--5186115	21	3.2	21	65	29	64	31	4	21	42	1.74
5186047--5186165	35	3.3	37	90	5	181	31	5	19	44	1.72
5186504--5186683	38	4.7	38	76	5	148	51	22	15	11	1.75
5186501--5186683	76	2.4	76	77	3	190	51	22	15	10	1.74
5186592--5186657	18	3.6	18	67	15	53	56	13	21	9	1.65
5190729--5190983	38	6.7	38	78	3	235	49	22	16	11	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5190894--5190958	18	3.5	18	70	15	60	55	20	15	9	1.67
5190911--5190978	20	3.5	20	71	17	70	51	27	13	7	1.67
5190727--5190983	114	2.3	114	80	4	268	49	22	17	11	1.78
5193180--5193249	2	35.5	2	97	2	133	50	0	0	50	1.00
5197530--5197787	137	1.9	138	87	5	380	28	12	17	41	1.86
5204189--5204271	27	3.1	27	100	0	166	22	21	18	37	1.94
5214664--5214702	21	1.9	20	84	5	51	28	15	17	38	1.91
5221079--5221143	2	33.0	2	96	3	123	50	0	0	49	1.00
5221143--5221184	2	21.0	2	100	0	84	0	0	50	50	1.00
5222408--5222458	20	2.5	20	90	0	75	31	19	19	29	1.97
5226396--5226690	130	2.3	128	81	4	326	32	14	18	34	1.91
5226471--5226729	130	2.0	129	80	3	286	35	14	16	32	1.90
5227778--5227816	2	19.5	2	100	0	78	48	0	0	51	1.00
5230294--5230472	60	3.0	60	74	6	155	39	3	23	32	1.73
5231714--5231738	6	4.2	6	100	0	50	32	16	16	36	1.90
5233877--5234007	60	2.2	60	82	6	151	35	16	9	38	1.82
5245118--5245157	21	1.9	21	100	0	80	25	27	22	25	2.00
5245482--5245509	2	14.0	2	100	0	56	50	0	0	50	1.00
5245902--5245953	21	2.5	21	100	0	104	26	26	21	25	1.99
5268843--5268913	32	2.2	32	90	5	108	35	11	0	53	1.37
5270425--5270480	25	2.2	25	78	15	62	23	14	23	39	1.91
5271388--5271427	20	2.0	20	100	0	80	5	40	10	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5275270--5275435	62	2.7	62	82	0	190	29	31	24	13	1.94
5275270--5275435	31	5.4	31	78	0	163	29	31	24	13	1.94
5279940--5279978	19	2.0	21	90	10	64	41	0	0	58	0.98
5280296--5280323	3	9.3	3	100	0	56	67	0	0	32	0.91
5280933--5281010	27	2.8	26	77	14	86	48	2	12	35	1.55
5280933--5281011	26	2.9	25	73	19	70	48	2	12	36	1.55
5282758--5282849	32	2.9	32	85	4	107	35	6	5	52	1.51
5282938--5283027	2	45.0	2	96	0	162	51	0	1	47	1.08
5284479--5284544	33	2.1	31	83	11	80	30	1	1	66	1.10
5285820--5285897	21	3.7	21	72	6	68	28	32	14	25	1.94
5286292--5286416	25	5.5	25	65	27	89	20	4	8	67	1.35
5286294--5286505	44	4.8	44	86	5	318	21	5	7	66	1.37
5286294--5286549	88	2.8	91	82	7	231	22	4	8	64	1.40
5286294--5286554	135	2.0	132	83	9	334	22	4	8	64	1.39
5286505--5286563	14	4.3	14	80	8	68	25	1	11	61	1.40
5286530--5286600	23	3.1	23	83	6	90	22	0	11	66	1.23
5289649--5289697	18	2.8	17	84	9	62	18	40	22	18	1.91
5290549--5290593	21	2.1	21	83	4	54	37	15	13	33	1.86
5292150--5292281	24	5.5	24	83	7	133	27	11	19	41	1.86
5298844--5298902	27	2.2	27	93	0	100	54	10	10	25	1.65
5305685--5305722	20	1.9	20	88	0	58	39	13	21	26	1.89
5305960--5306002	20	2.2	19	83	4	50	23	20	37	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5309269--5309315	20	2.4	20	82	3	60	27	25	10	36	1.89
5309289--5309401	40	2.9	40	76	2	104	30	22	12	34	1.91
5309368--5309417	18	2.6	19	87	9	75	36	22	8	34	1.83
5309457--5309495	16	2.5	15	84	8	51	28	5	0	66	1.12
5310085--5310118	12	2.8	12	90	0	50	55	29	0	14	1.40
5310951--5311049	3	34.0	3	86	8	134	35	0	1	63	1.01
5310956--5311049	37	2.5	37	91	5	145	36	0	1	62	1.02
5310950--5311063	25	5.1	23	76	17	89	37	0	0	61	1.02
5310955--5311064	37	3.0	36	77	15	109	39	0	0	60	1.03
5311073--5311126	22	2.4	22	77	20	58	44	33	12	9	1.75
5313102--5313141	11	3.3	13	80	13	50	50	2	0	47	1.14
5321108--5321165	22	2.6	22	91	0	89	29	17	17	36	1.92
5321679--5322007	164	2.0	166	95	1	590	35	12	12	38	1.82
5322006--5322599	73	8.0	73	92	2	902	25	20	20	32	1.97
5322752--5322848	3	32.3	3	81	8	117	35	1	1	62	1.09
5322752--5322848	28	3.3	29	84	7	126	35	1	1	62	1.09
5324903--5324942	11	3.3	13	80	13	50	50	2	0	47	1.14
5326893--5326928	16	2.2	16	90	0	54	66	13	0	19	1.24
5328331--5328440	21	5.3	21	76	6	89	26	14	36	22	1.93
5328573--5328606	4	8.5	4	86	0	50	70	2	0	26	1.01
5328715--5328766	21	2.5	21	87	0	68	36	26	17	19	1.94
5328888--5328967	3	27.3	3	76	9	76	37	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5332186--5332246	21	2.9	21	82	2	77	47	21	13	18	1.82
5335381--5335435	23	2.4	23	100	0	110	45	7	27	20	1.77
5336154--5336525	125	3.0	124	83	3	435	32	16	25	25	1.96
5337839--5337933	36	2.6	37	88	6	140	40	20	16	23	1.91
5338435--5338565	56	2.3	56	90	0	181	36	17	22	23	1.95
5338460--5338614	56	2.8	56	86	4	190	33	16	23	26	1.96
5338581--5338927	55	6.6	52	83	7	384	29	15	25	29	1.96
5338578--5338927	154	2.2	156	85	4	463	29	15	25	30	1.95
5338582--5338986	106	3.8	106	80	8	416	29	15	24	29	1.96
5339176--5339270	3	32.3	3	82	8	115	37	3	0	58	1.14

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