genome.fa.s9579.2.7.7.80.10.50.1000.26.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  26  of  29  ( 3390 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)
5349208--5349269	31	2.0	31	84	6	81	35	22	19	22	1.96
5350247--5350387	64	2.2	63	80	7	151	26	24	17	31	1.97
5351200--5351240	21	2.0	21	90	0	64	19	4	4	70	1.24
5351229--5351283	11	5.0	11	80	12	60	30	0	1	67	1.01
5351233--5351283	3	18.0	3	84	11	63	31	0	1	66	1.03
5360130--5360349	114	1.9	114	91	0	359	34	15	20	30	1.94
5362938--5362990	22	2.4	22	87	0	79	33	15	13	37	1.86
5363400--5364065	113	5.9	113	91	1	1050	37	15	19	27	1.92
5364373--5364452	21	3.7	21	78	17	67	25	1	3	70	1.12
5364401--5364478	3	27.0	3	78	17	67	35	0	1	62	1.03
5364376--5364452	19	3.9	20	79	12	79	25	1	2	70	1.08
5364391--5364455	22	3.0	22	84	4	80	27	0	3	69	1.03
5364424--5364460	8	4.6	8	90	9	58	37	0	0	62	0.96
5364421--5364478	22	2.4	25	86	8	77	39	0	0	60	0.97
5367002--5367041	21	1.9	21	89	0	62	25	22	12	40	1.89
5369232--5369289	28	2.1	28	81	12	68	39	15	5	39	1.70
5369616--5369673	20	2.7	20	86	10	71	27	22	18	31	1.97
5369661--5369801	64	2.2	63	80	7	151	26	24	18	30	1.98
5378058--5378092	15	2.3	15	100	0	70	22	51	5	20	1.68
5378288--5379149	198	4.4	198	98	0	1654	34	18	19	27	1.96
5384652--5384896	122	2.0	122	92	1	411	33	20	10	35	1.87
5385052--5385115	2	32.5	2	96	3	121	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5401405--5401446	18	2.3	18	100	0	84	35	26	0	38	1.57
5405435--5405477	21	2.0	21	82	13	52	23	0	13	62	1.31
5405645--5405814	21	7.9	21	73	18	136	20	21	24	33	1.97
5405729--5405779	26	2.0	26	96	0	93	17	21	29	31	1.96
5406527--5406566	21	1.9	21	94	0	71	27	25	25	22	2.00
5406551--5406753	104	2.0	104	90	0	325	26	21	22	30	1.99
5406617--5406733	62	1.9	62	87	3	173	23	22	23	30	1.99
5406575--5406753	21	8.6	21	80	6	193	25	21	23	30	1.99
5412993--5413030	19	2.0	19	100	0	76	36	15	15	31	1.90
5415682--5415745	23	2.8	23	85	4	94	28	26	26	18	1.98
5421869--5421895	2	13.5	2	100	0	54	0	51	0	48	1.00
5432582--5432633	20	2.6	20	96	0	95	38	26	13	21	1.90
5432623--5432721	21	4.8	20	72	6	72	36	23	19	21	1.95
5432688--5432881	20	9.6	20	81	5	221	35	25	19	19	1.95
5432688--5432881	60	3.2	60	83	0	253	35	25	19	19	1.95
5433263--5433333	33	2.2	33	92	0	115	11	22	18	47	1.80
5433454--5433508	14	3.6	14	73	21	56	40	23	27	9	1.85
5433454--5433524	33	2.2	33	92	0	115	42	25	23	8	1.82
5433520--5433617	19	5.7	19	70	22	81	10	24	22	42	1.84
5433542--5433631	14	5.7	14	74	23	81	8	25	23	42	1.83
5433525--5433639	33	3.5	33	95	0	212	9	24	20	45	1.81
5435338--5435719	185	2.1	186	98	0	748	22	12	18	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5435338--5435717	93	4.1	93	98	0	744	22	12	18	46	1.83
5435761--5435889	19	7.3	19	75	17	125	45	28	17	8	1.77
5435797--5435889	33	2.8	32	91	4	150	46	27	18	7	1.76
5435761--5435889	52	2.5	52	74	14	140	45	28	17	8	1.77
5435885--5436019	19	7.6	19	76	16	137	10	19	24	45	1.81
5435907--5435963	14	3.7	14	77	20	60	8	21	24	45	1.80
5435890--5435982	33	2.8	33	98	0	177	9	20	22	47	1.79
5437836--5437908	38	1.9	38	97	0	137	28	1	16	53	1.51
5437831--5437895	19	3.4	19	64	8	51	24	1	15	58	1.46
5437890--5437925	14	2.6	14	95	0	63	33	0	22	44	1.53
5438032--5438133	19	5.6	19	84	13	151	44	17	23	14	1.86
5438162--5438468	19	17.4	19	79	16	367	14	20	17	47	1.82
5438140--5438401	52	4.9	52	87	7	341	14	20	17	46	1.83
5438309--5438363	14	3.6	14	73	21	56	10	23	20	45	1.82
5438162--5438440	52	5.2	52	84	9	295	14	21	16	47	1.82
5438140--5438468	33	9.5	33	77	17	153	14	20	17	46	1.83
5440775--5440799	12	2.1	12	100	0	50	0	28	0	72	0.86
5440974--5441020	24	2.0	24	87	8	69	38	21	14	25	1.92
5441694--5442062	20	18.5	20	86	4	458	20	18	26	34	1.96
5445841--5445869	2	14.5	2	100	0	58	51	0	0	48	1.00
5450899--5450957	24	2.4	23	81	15	66	50	3	8	37	1.49
5469056--5469106	24	2.1	24	88	0	75	50	11	0	37	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5472260--5472299	19	2.2	19	86	4	55	35	5	0	60	1.19
5484296--5484338	18	2.3	20	88	11	65	34	6	0	58	1.25
5484985--5485045	29	2.1	30	93	3	106	55	14	11	18	1.68
5485144--5485254	57	1.9	58	88	3	170	31	12	7	48	1.68
5497434--5497553	31	3.9	31	78	4	116	45	17	8	29	1.78
5497434--5497553	62	1.9	62	83	3	152	45	17	8	29	1.78
5517849--5517894	21	2.2	21	84	0	56	26	36	17	19	1.94
5519425--5519463	20	2.0	20	84	0	51	20	23	17	38	1.93
5520147--5520200	24	2.2	24	90	0	81	40	20	14	24	1.90
5520166--5520214	24	2.0	24	84	0	62	38	22	16	22	1.92
5521096--5521167	19	3.7	19	94	3	117	27	12	23	36	1.91
5521134--5521189	20	2.7	22	86	8	73	21	16	25	37	1.93
5522044--5522080	14	2.6	15	87	8	51	37	0	2	59	1.12
5525839--5525897	24	2.4	24	78	18	68	37	0	0	62	0.95
5525832--5525889	30	2.0	29	90	10	91	34	0	0	65	0.93
5525925--5525949	12	2.1	12	100	0	50	68	0	8	24	1.16
5527777--5527851	27	2.8	27	93	0	123	34	20	16	29	1.94
5528298--5528400	2	55.0	2	70	12	67	47	0	0	52	1.00
5528797--5528840	23	1.9	23	95	0	79	40	0	13	45	1.44
5530658--5530682	5	5.0	5	100	0	50	40	0	40	20	1.52
5533232--5533276	23	2.0	23	86	0	63	26	26	26	20	1.99
5533391--5533484	25	3.8	25	94	0	161	29	24	26	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5535149--5535193	21	2.1	21	87	0	63	15	24	28	31	1.96
5536317--5536341	7	3.6	7	100	0	50	16	24	0	60	1.36
5538485--5538553	25	2.8	25	100	0	138	27	26	28	17	1.97
5539777--5539807	16	1.9	16	93	0	53	51	22	0	25	1.48
5540158--5540202	21	2.1	21	87	0	63	15	24	28	31	1.96
5544440--5544469	15	2.0	15	93	0	51	30	0	6	63	1.20
5544526--5544580	22	2.6	21	82	8	67	60	0	1	38	1.08
5544719--5544797	35	2.3	35	82	4	97	36	2	2	58	1.25
5544947--5545006	2	30.0	2	100	0	120	50	0	0	50	1.00
5548874--5548900	2	13.5	2	100	0	54	48	0	0	51	1.00
5557250--5557324	23	3.3	21	73	15	62	70	2	0	26	1.00
5557230--5557324	25	3.8	24	78	18	106	68	2	1	28	1.08
5557250--5557324	21	3.3	21	74	16	78	70	2	0	26	1.00
5557609--5557653	22	2.0	22	83	8	56	26	2	11	60	1.42
5557790--5557834	20	2.3	20	80	3	56	46	4	2	46	1.35
5558190--5558294	3	35.0	3	100	0	210	66	0	0	33	0.92
5574872--5575632	380	2.0	380	95	0	1360	35	15	21	27	1.94
5579580--5579610	13	2.3	14	94	5	55	38	0	0	61	0.96
5580711--5580762	24	2.1	23	82	10	59	50	1	0	48	1.12
5617203--5617248	21	2.2	21	88	0	65	32	30	23	13	1.93
5617272--5617320	22	2.2	22	82	7	64	32	30	28	8	1.86
5618107--5618289	31	6.0	31	86	6	259	19	18	21	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5618133--5618186	27	2.2	23	77	22	72	16	22	22	38	1.93
5618107--5618276	58	2.8	60	91	3	254	18	18	21	40	1.91
5621430--5621475	21	2.2	21	84	0	56	30	30	26	13	1.93
5621499--5621547	22	2.2	22	78	7	55	34	30	26	8	1.86
5622334--5622505	31	5.5	31	97	0	317	19	19	22	39	1.92
5634792--5634817	11	2.4	11	100	0	52	15	50	11	23	1.76
5635432--5635462	15	2.0	16	93	6	55	64	16	19	0	1.29
5647476--5647839	180	2.0	180	98	0	710	41	17	9	31	1.82
5658266--5658290	12	2.1	12	100	0	50	40	24	16	20	1.91
5664371--5664510	75	1.9	75	83	3	183	30	15	32	22	1.94

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