genome.fa.s8105.2.7.7.80.10.50.1000.28.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  28  of  30  ( 3521 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)
5360113--5360225	42	2.7	42	80	2	129	24	23	21	30	1.98
5359147--5360670	214	7.1	215	93	1	2486	32	15	20	31	1.94
5360328--5360429	42	2.5	41	81	1	123	24	23	22	29	1.99
5360544--5360655	42	2.7	42	83	2	127	25	24	21	29	1.99
5390647--5390700	27	2.1	25	82	6	63	64	0	0	35	0.94
5393834--5393934	3	34.7	3	92	5	163	33	1	0	64	1.05
5393817--5393933	26	4.4	27	86	8	118	32	3	0	64	1.10
5393836--5393930	23	4.0	24	86	9	131	32	2	0	65	1.05
5403090--5403125	18	2.1	18	89	5	56	33	8	0	58	1.28
5407685--5408156	83	5.7	83	91	4	724	26	13	23	36	1.92
5407703--5408156	249	1.8	248	95	1	829	25	13	23	37	1.92
5408789--5409428	114	5.6	113	91	2	917	37	14	20	28	1.91
5408800--5409428	227	2.8	227	89	2	924	37	14	20	28	1.91
5408806--5409492	341	2.0	339	82	4	839	37	14	18	29	1.90
5409564--5409638	3	24.7	3	94	2	132	33	1	0	65	1.01
5409637--5409671	14	2.4	15	85	4	54	60	0	0	40	0.97
5413504--5413562	23	2.6	22	83	2	64	40	18	10	30	1.84
5413527--5413584	22	2.6	23	94	2	100	37	18	12	31	1.88
5418590--5418641	23	2.3	22	80	9	59	38	15	17	28	1.90
5427063--5427222	65	2.5	65	88	5	227	27	19	23	29	1.98
5427063--5427272	65	3.2	64	79	13	225	27	19	23	29	1.98
5433777--5433816	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5435761--5435920	65	2.5	65	85	7	202	28	18	21	31	1.97
5441186--5441245	26	2.3	26	86	11	79	30	8	5	56	1.50
5441196--5441253	26	2.2	26	84	6	73	27	12	5	55	1.58
5445252--5445291	22	2.0	21	85	14	57	25	5	7	62	1.42
5451462--5451501	16	2.5	16	87	0	62	0	15	0	85	0.61
5453876--5453930	22	2.5	22	80	11	60	63	5	10	20	1.46
5457980--5458051	3	24.3	3	78	13	60	66	0	1	31	1.00
5457963--5458032	29	2.4	29	85	7	97	62	0	1	35	1.04
5461499--5461577	35	2.3	35	91	4	124	40	13	20	25	1.89
5467518--5467607	29	3.0	29	81	9	101	33	15	7	43	1.76
5468940--5468981	18	2.3	18	91	0	66	33	35	14	16	1.89
5473764--5473799	18	2.0	18	94	0	63	30	33	19	16	1.94
5479081--5479118	12	3.2	12	92	0	67	7	15	50	26	1.72
5479081--5479135	24	2.3	24	90	0	83	12	14	47	25	1.80
5479232--5479275	13	3.5	13	93	3	72	13	15	52	18	1.75
5479333--5479357	6	4.2	6	100	0	50	0	64	16	20	1.30
5489228--5489298	35	2.0	36	94	2	126	35	15	15	33	1.89
5493690--5493744	19	2.9	19	91	0	92	47	5	12	34	1.65
5493729--5493758	14	2.1	14	100	0	60	43	0	13	43	1.43
5493691--5493810	19	6.6	19	75	12	81	43	2	16	37	1.62
5493841--5493898	13	4.5	13	76	4	64	60	0	17	22	1.36
5493841--5493900	25	2.3	26	88	8	88	58	0	18	23	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5495086--5495119	17	1.9	17	88	5	50	67	2	2	26	1.19
5495915--5496039	45	2.8	45	97	0	232	24	24	6	44	1.77
5496279--5496842	55	10.3	55	86	1	645	28	18	18	34	1.95
5497174--5497233	19	2.9	22	75	14	63	33	20	15	31	1.93
5502005--5502237	46	5.1	46	91	2	360	26	19	9	44	1.80
5502491--5502619	54	2.4	54	78	2	143	34	16	15	34	1.90
5506461--5506498	19	2.0	19	100	0	76	26	31	15	26	1.96
5509989--5510013	2	12.5	2	100	0	50	52	0	0	48	1.00
5511084--5511475	54	7.4	54	87	4	568	30	18	18	31	1.96
5516290--5516475	46	4.1	46	90	1	293	24	20	10	44	1.83
5516390--5516461	22	3.2	22	64	11	56	26	22	12	38	1.89
5516710--5517132	54	7.9	53	84	5	482	31	17	18	32	1.94
5516720--5517133	158	2.6	160	83	5	516	31	17	18	32	1.94
5518432--5518652	66	3.4	65	77	9	166	40	14	18	26	1.89
5518853--5518916	32	2.0	32	87	6	94	32	26	15	25	1.95
5528241--5528291	26	2.0	24	88	7	75	0	19	5	74	1.02
5537361--5537414	20	2.8	19	80	2	63	22	16	0	61	1.35
5541059--5541109	20	2.5	20	81	6	59	15	5	1	76	1.07
5544230--5544371	71	2.0	71	98	0	275	26	25	19	28	1.98
5545671--5545745	21	3.6	21	92	0	123	29	25	22	22	1.99
5545760--5545868	21	5.3	21	74	12	118	22	16	27	33	1.95
5545762--5545817	19	2.8	19	89	5	76	23	16	30	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5545760--5545892	42	3.2	42	88	2	189	22	16	25	35	1.95
5545818--5545889	21	3.4	21	70	14	67	22	18	20	38	1.93
5545967--5546011	6	7.5	6	87	0	63	22	62	15	0	1.33
5545963--5546011	18	2.7	18	90	0	71	24	61	14	0	1.33
5546496--5546526	5	6.4	5	96	3	55	0	41	22	35	1.54
5546540--5546566	6	4.5	6	100	0	54	0	14	51	33	1.43
5549528--5549634	34	3.1	34	87	0	160	37	3	4	54	1.39
5550088--5550133	21	2.2	21	92	0	74	23	23	32	19	1.97
5550088--5550139	21	2.5	21	81	12	70	21	25	34	19	1.96
5551922--5552008	26	3.4	27	81	10	94	59	0	0	40	0.97
5551935--5551991	15	4.1	15	70	22	52	57	0	0	42	0.98
5553887--5553941	25	2.1	26	93	6	94	29	27	29	14	1.95
5556117--5556305	76	2.5	77	89	4	278	23	33	23	20	1.97
5557347--5557376	15	2.0	15	93	0	51	56	30	0	13	1.37
5562841--5562899	28	2.1	27	81	9	66	44	1	0	54	1.10
5562917--5562980	26	2.4	28	85	10	82	50	1	0	48	1.10
5563033--5563065	8	4.2	8	84	7	50	39	0	0	60	0.97
5563035--5563064	15	2.0	15	93	0	51	36	0	0	63	0.95
5563018--5563079	23	2.8	22	80	4	70	41	1	0	56	1.09
5563022--5563162	37	3.6	39	72	9	101	46	2	0	50	1.18
5563486--5563529	15	2.8	15	82	6	52	50	0	0	50	1.00
5570294--5570340	12	4.0	12	86	5	69	21	23	6	48	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5573914--5574103	104	1.8	104	88	0	290	22	14	17	45	1.85
5575440--5575486	23	2.1	22	81	14	53	61	6	2	29	1.32
5576425--5576611	96	1.9	96	82	2	232	41	17	13	27	1.87
5578578--5578618	15	2.7	15	96	0	73	14	14	31	39	1.87
5586414--5586613	104	1.9	104	84	0	265	23	14	17	45	1.85
5592781--5592808	8	3.5	8	100	0	56	64	0	25	10	1.26
5593928--5594262	54	6.2	54	89	2	467	35	20	17	26	1.95
5594823--5595096	54	5.1	54	88	4	365	35	18	18	27	1.94
5597243--5597280	18	2.1	19	90	5	60	31	18	7	42	1.79
5597456--5597574	19	6.3	19	93	0	193	31	18	6	43	1.76
5598343--5598395	20	2.7	20	91	2	81	18	16	30	33	1.94
5598423--5598460	20	1.9	20	88	0	58	21	15	34	28	1.94
5605063--5605102	21	1.9	21	85	10	55	35	10	2	52	1.48
5607088--5607141	20	2.7	20	100	0	108	16	20	29	33	1.95
5607214--5607251	20	1.9	20	88	0	58	18	15	31	34	1.92
5611142--5611232	29	3.0	29	80	10	94	34	16	7	41	1.77
5612055--5612083	2	14.5	2	100	0	58	51	0	0	48	1.00
5612243--5612311	24	2.9	24	77	0	75	53	14	10	21	1.70
5612244--5612349	24	4.4	24	67	7	72	50	14	12	22	1.75
5615261--5615314	23	2.3	23	96	0	99	25	14	44	14	1.84
5619384--5619454	19	3.7	19	90	0	115	30	19	7	42	1.78
5619795--5619834	19	2.0	20	85	9	55	62	2	0	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5622812--5622873	29	2.1	30	87	3	90	37	19	6	37	1.78
5622936--5622963	10	2.8	10	100	0	56	7	53	17	21	1.67
5626666--5627021	178	2.0	177	99	0	703	44	20	14	21	1.86
5630616--5630747	64	2.0	67	95	4	243	31	19	13	35	1.91
5632982--5633279	90	3.3	90	97	0	560	37	10	6	45	1.64
5650985--5651117	66	2.0	66	100	0	266	22	24	18	34	1.96
5663382--5663450	16	4.3	16	88	0	93	24	26	11	37	1.89
5663650--5663676	13	2.1	13	100	0	54	55	0	0	44	0.99
5663716--5663762	14	3.7	14	71	26	50	44	0	4	51	1.21
5663715--5663764	23	2.1	24	96	3	93	48	0	4	48	1.20

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