genome.fa.s7823.2.7.7.80.10.50.1000.28.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  28  of  33  ( 3920 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)
5108800--5108852	2	26.5	2	100	0	106	50	0	0	49	1.00
5111379--5111492	19	5.8	19	76	8	120	35	16	15	32	1.91
5111389--5111492	40	2.6	40	81	6	129	34	17	14	33	1.90
5115193--5115247	23	2.5	22	88	5	85	34	18	20	27	1.95
5119686--5119894	104	2.0	104	100	0	418	19	19	19	42	1.89
5123227--5123296	21	3.7	20	70	16	58	27	27	15	30	1.96
5123343--5123397	16	3.1	18	80	15	60	29	25	16	29	1.97
5123324--5123395	36	2.0	36	86	5	101	29	23	18	29	1.97
5123756--5123821	34	2.0	34	84	3	89	33	15	27	24	1.95
5125857--5125913	18	3.0	18	80	14	78	28	12	10	49	1.73
5125857--5125913	21	3.0	20	82	12	75	28	12	10	49	1.73
5126405--5126445	20	1.9	21	85	14	57	36	41	9	12	1.76
5127388--5127430	15	3.0	15	86	6	54	48	6	6	37	1.57
5127410--5127452	18	2.4	18	92	0	68	32	13	4	48	1.63
5131232--5131265	17	2.0	17	100	0	68	52	0	23	23	1.47
5131607--5131639	16	2.1	16	100	0	66	24	6	6	63	1.40
5131900--5131982	33	2.4	37	86	8	111	51	6	8	33	1.57
5134343--5134369	13	2.1	13	100	0	54	37	14	25	22	1.93
5134380--5134414	4	8.8	4	100	0	70	25	0	0	74	0.82
5137089--5137202	20	5.6	20	70	4	93	17	20	22	39	1.92
5137068--5137182	21	5.6	21	69	4	90	20	18	25	36	1.94
5137064--5137205	41	3.5	41	94	0	239	19	19	23	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5137233--5137286	22	2.5	22	87	0	90	18	16	27	37	1.93
5137073--5137245	82	2.1	82	87	5	244	20	18	22	38	1.94
5137385--5137471	6	14.5	6	100	0	174	33	50	16	0	1.45
5137956--5137993	5	7.6	5	100	0	76	0	39	21	39	1.53
5137990--5138037	6	8.2	6	95	4	89	0	16	50	33	1.46
5138688--5138733	22	2.1	22	83	0	56	73	4	6	15	1.19
5139917--5139947	11	2.8	11	95	0	53	25	0	0	74	0.82
5140004--5140030	10	2.7	10	100	0	54	25	0	7	66	1.17
5141479--5141534	24	2.3	24	90	0	94	26	16	17	39	1.91
5143958--5144032	30	2.5	30	97	2	143	64	5	10	20	1.45
5144469--5144602	66	2.0	67	98	1	261	27	40	10	21	1.86
5146780--5146837	30	1.9	31	82	3	73	58	18	6	15	1.59
5147690--5147803	60	1.9	60	87	0	165	35	14	17	33	1.90
5149313--5149359	24	2.0	24	83	4	60	10	2	29	57	1.44
5155873--5155902	15	2.0	15	100	0	60	60	20	6	13	1.55
5157615--5157646	10	3.2	10	90	0	55	31	28	0	40	1.57
5158409--5158534	63	2.0	63	100	0	252	26	14	26	31	1.95
5159423--5159469	21	2.2	21	81	7	60	34	40	10	14	1.81
5162993--5163094	19	5.4	19	74	0	78	32	12	30	24	1.92
5162992--5163103	57	2.0	57	87	0	161	32	13	30	24	1.93
5163008--5163108	19	5.3	19	72	4	60	29	13	31	24	1.94
5163217--5163269	25	2.1	25	92	0	88	22	33	33	9	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5164124--5164148	13	1.9	13	100	0	50	48	0	0	52	1.00
5164719--5164770	27	1.9	27	84	0	68	26	17	17	38	1.92
5169000--5169139	70	2.0	70	92	0	235	33	15	22	28	1.95
5171475--5171527	20	2.8	18	83	10	70	30	24	11	33	1.90
5174554--5174589	3	12.0	3	93	0	63	36	0	0	63	0.94
5174932--5175000	23	3.0	23	78	0	84	30	23	26	20	1.98
5186498--5186540	21	2.0	21	81	0	50	27	27	25	18	1.98
5187463--5187559	32	3.1	32	77	14	119	28	16	18	36	1.93
5187465--5187562	31	3.1	31	78	7	108	29	18	18	33	1.95
5187550--5187643	30	3.1	30	90	3	136	21	21	26	30	1.98
5191347--5191389	21	2.0	21	81	0	50	27	27	25	18	1.98
5192310--5192406	32	3.1	32	78	14	128	28	17	18	35	1.94
5192309--5192409	31	3.2	31	81	10	125	28	18	18	33	1.95
5192397--5192490	30	3.1	30	90	3	136	20	21	27	30	1.98
5194207--5194254	17	3.0	15	77	14	51	56	27	2	14	1.50
5207034--5207074	2	20.5	2	100	0	82	51	0	0	48	1.00
5207070--5207122	26	2.0	27	82	10	65	58	3	3	33	1.34
5209785--5209896	20	5.7	20	85	3	120	44	5	20	29	1.73
5209875--5209914	18	2.2	18	81	0	53	50	7	15	27	1.70
5210802--5210827	2	13.0	2	100	0	52	50	0	0	50	1.00
5220340--5220630	145	2.0	145	100	0	582	26	18	23	31	1.97
5226143--5226186	14	3.1	14	83	3	52	13	11	0	75	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5226136--5226207	31	2.3	32	79	13	78	11	13	1	73	1.16
5226149--5226202	15	3.5	15	82	7	56	7	12	1	77	1.05
5231274--5232109	165	5.1	164	86	3	875	29	24	20	25	1.99
5231274--5232056	249	3.2	245	83	4	905	29	24	20	25	1.99
5231349--5232210	165	5.2	164	86	4	783	30	25	19	24	1.98
5232091--5232347	128	2.0	129	99	0	507	32	28	17	21	1.96
5232867--5232891	13	1.9	13	100	0	50	40	0	12	48	1.40
5232886--5232931	25	1.9	24	86	8	67	47	2	4	45	1.34
5232879--5232937	25	2.5	23	80	5	64	44	1	6	47	1.39
5232960--5233184	35	6.5	31	71	23	125	45	3	7	43	1.48
5233065--5233192	31	3.9	31	73	17	107	46	3	6	43	1.47
5233229--5233261	10	3.4	10	87	4	50	21	9	0	69	1.15
5237331--5237370	20	2.0	20	85	0	53	42	0	5	52	1.23
5237508--5237570	26	2.4	27	81	7	76	41	1	0	57	1.08
5241644--5241716	33	2.2	33	97	0	137	24	24	8	42	1.82
5241644--5241697	15	3.4	15	71	14	54	25	25	7	40	1.82
5241658--5241715	18	3.4	18	74	13	68	20	24	8	46	1.78
5244823--5244873	20	2.5	21	83	3	59	27	35	9	27	1.88
5244904--5246161	419	3.0	419	94	0	2200	32	23	11	32	1.91
5247595--5247639	19	2.3	20	88	3	65	20	13	31	35	1.91
5258569--5258643	38	2.0	38	94	0	132	22	38	16	22	1.92
5267960--5267999	13	3.0	13	82	7	53	45	7	10	37	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5267960--5268000	14	3.0	14	85	3	57	46	7	9	36	1.65
5268493--5268595	44	2.3	44	85	6	129	30	21	21	27	1.98
5268526--5268603	21	3.6	21	68	14	59	26	23	20	29	1.99
5268991--5269021	15	2.1	15	93	0	53	38	9	16	35	1.81
5274831--5275038	65	3.2	63	79	12	208	31	24	18	26	1.97
5279451--5279486	17	2.2	16	90	5	54	27	0	19	52	1.46
5285133--5285162	15	2.0	15	93	0	51	33	0	30	36	1.58
5286718--5286877	65	2.5	63	83	8	198	32	25	15	26	1.95
5287688--5287790	23	4.6	23	83	6	131	23	24	22	30	1.99
5287701--5287786	44	1.9	45	85	4	120	23	24	20	31	1.98
5289736--5289792	28	2.0	28	83	6	71	19	3	22	54	1.59
5290471--5290630	65	2.5	63	81	8	189	32	23	16	27	1.96
5293883--5293921	17	2.3	17	86	0	51	28	43	12	15	1.83
5294445--5294469	13	1.9	13	100	0	50	32	12	8	48	1.69
5297911--5297942	15	2.1	15	94	0	55	34	0	3	62	1.11
5299293--5299319	2	13.5	2	100	0	54	51	0	0	48	1.00
5299303--5299355	23	2.2	24	83	6	72	50	7	0	41	1.30
5299303--5299361	23	2.6	23	76	15	68	50	6	0	42	1.28
5302602--5302756	64	2.4	63	80	10	170	27	1	16	54	1.52
5303315--5303363	19	2.6	19	78	18	57	22	4	2	71	1.13
5306310--5306390	5	16.0	5	74	12	58	23	8	0	67	1.18
5306310--5306362	14	4.0	14	78	9	58	20	9	0	69	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5307993--5308041	16	3.1	16	90	0	80	59	20	12	8	1.58
5309129--5309176	10	4.4	10	78	19	51	54	25	12	8	1.65
5309136--5309177	14	3.3	14	75	25	56	52	26	14	7	1.67
5309129--5309177	24	2.0	24	100	0	98	53	24	14	8	1.68
5309638--5309761	65	1.9	64	87	8	180	27	0	17	54	1.43
5310504--5310545	19	2.3	19	87	4	59	19	4	2	73	1.12
5314355--5314380	3	8.7	3	100	0	52	34	0	30	34	1.58
5327604--5327661	29	2.0	30	89	3	91	32	10	10	46	1.72
5327662--5327710	16	3.1	16	84	0	71	57	22	12	8	1.61
5333413--5333443	2	15.5	2	100	0	62	48	0	0	51	1.00

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