genome.fa.s1484.2.7.7.80.10.50.1000.2.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: VEPZ01001484.1 Hibiscus syriacus cultivar Beakdansim tig00002880_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1039362

Tables:   1   2   3   4   

This is table  2  of  4  ( 472 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)
250347--250382	6	6.0	6	96	0	63	30	33	16	19	1.94
250487--250531	13	3.2	14	81	9	56	62	0	11	26	1.29
251339--251408	20	3.5	20	98	0	131	10	8	28	52	1.64
251590--251644	26	2.1	27	86	10	78	54	0	1	43	1.10
255022--255055	17	1.9	17	88	5	50	67	0	0	32	0.91
256169--256318	42	3.5	42	76	12	137	27	16	6	50	1.69
258566--258611	11	4.0	11	81	10	56	43	0	0	56	0.99
258557--258604	24	2.0	24	91	0	78	45	0	0	54	0.99
258557--258623	24	2.8	24	80	8	66	46	0	0	53	1.00
258619--258649	15	2.1	15	100	0	62	54	0	12	32	1.38
259445--259499	24	2.3	24	79	17	69	23	3	5	67	1.28
262412--262513	42	2.4	42	90	0	159	46	23	6	23	1.76
267468--267531	32	2.0	32	96	0	119	18	18	26	35	1.94
268896--268969	22	3.4	22	80	12	73	64	12	6	16	1.46
269017--269062	18	2.7	17	83	6	58	76	0	0	23	0.79
269018--269063	23	2.0	23	91	8	76	73	0	0	26	0.83
271668--271858	21	9.2	21	76	12	171	32	21	20	25	1.98
271668--271858	62	3.1	62	87	3	251	32	21	20	25	1.98
271854--271921	35	1.9	35	90	0	109	20	19	23	36	1.95
272581--272626	20	2.2	20	84	3	56	32	17	23	26	1.97
272644--272698	21	2.7	20	88	5	74	21	23	23	30	1.99
286869--287040	88	1.9	89	98	1	337	33	22	10	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
289237--289317	29	2.9	28	83	3	99	35	18	6	39	1.76
289228--289320	29	3.2	29	83	1	98	37	19	5	37	1.75
290535--290572	18	2.1	18	95	0	67	23	36	13	26	1.91
292132--292183	20	2.6	20	96	0	95	38	26	13	21	1.90
292239--292607	20	18.5	20	85	4	458	34	26	18	20	1.96
293290--293336	24	2.0	24	87	8	69	25	14	21	38	1.92
293511--293535	12	2.1	12	100	0	50	72	0	28	0	0.86
295316--295372	14	3.7	14	77	20	60	45	22	21	10	1.82
295297--295389	33	2.8	33	95	0	168	47	21	20	10	1.80
295260--295394	19	7.6	19	76	16	128	45	23	19	11	1.82
295390--295518	19	7.3	19	75	17	125	8	17	28	45	1.77
295390--295481	33	2.8	33	93	3	150	7	18	28	45	1.76
295550--296016	93	5.0	93	98	0	909	46	19	12	22	1.83
295550--296016	185	2.5	186	98	0	909	46	19	12	22	1.83
297722--297812	14	5.7	14	72	25	74	41	21	26	9	1.84
297770--297834	19	3.7	19	74	19	77	44	21	23	10	1.83
297714--297829	33	3.5	33	89	2	187	44	19	25	10	1.82
297832--297896	33	2.0	33	93	0	112	9	23	21	46	1.80
297841--297922	33	2.5	33	87	2	110	10	25	20	42	1.85
298021--298091	33	2.2	33	92	0	115	47	18	22	11	1.80
298273--298327	22	2.5	22	75	0	65	21	16	38	23	1.93
298473--298665	20	9.6	20	82	5	219	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298473--298665	60	3.2	60	83	0	251	19	19	25	35	1.95
298721--298772	20	2.6	20	96	0	95	21	13	26	38	1.90
305709--305784	36	2.1	36	85	7	100	47	1	2	48	1.24
306141--306179	3	13.0	3	100	0	78	33	0	0	66	0.92
308146--308277	60	2.2	60	79	4	140	44	3	8	43	1.49
317926--317973	24	2.0	24	100	0	96	20	29	25	25	1.99
329229--329253	12	2.1	12	100	0	50	56	0	8	36	1.29
330904--330941	16	2.4	16	86	8	51	23	2	10	63	1.39
336711--336965	69	3.7	69	89	3	352	30	20	11	36	1.89
339159--339199	16	2.5	16	96	4	73	51	0	0	48	1.00
344745--344856	59	1.9	59	81	3	136	39	5	22	33	1.77
352980--353069	39	2.3	39	80	0	99	36	25	17	20	1.94
353002--353088	39	2.2	39	81	0	102	33	26	20	19	1.97
354664--355177	254	2.0	256	96	2	960	33	8	16	41	1.79
365624--365655	2	16.0	2	100	0	64	50	0	0	50	1.00
366007--366054	3	16.0	3	100	0	96	0	66	0	33	0.92
366373--366446	29	2.5	30	82	4	96	31	9	12	47	1.73
400976--401004	7	4.3	7	95	4	51	75	0	10	13	1.04
404013--404056	19	2.3	19	96	0	79	22	34	15	27	1.95
409288--409347	14	4.3	14	93	0	93	8	18	20	53	1.70
409261--409350	24	3.6	24	72	20	69	11	15	17	55	1.68
421281--421424	76	1.9	76	98	0	279	29	17	20	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426491--426528	4	9.0	4	88	11	58	23	2	2	71	1.12
426490--426524	18	1.9	18	100	0	70	22	2	5	68	1.24
426963--426998	14	2.6	14	90	0	54	36	2	2	58	1.27
426997--427050	21	2.7	20	86	8	74	37	1	0	61	1.07
429960--430008	23	2.0	25	84	7	66	59	2	4	34	1.28
431030--431075	21	2.1	22	88	8	67	23	4	4	67	1.27
433093--433128	2	18.0	2	100	0	72	50	0	0	50	1.00
433404--433453	22	2.3	22	100	0	100	38	0	18	44	1.50
438894--439193	154	2.0	153	91	0	483	36	15	8	39	1.78
442994--443018	12	2.1	12	100	0	50	48	24	0	28	1.52
444028--444064	2	18.5	2	100	0	74	48	0	0	51	1.00
447436--447489	24	2.2	24	86	0	72	55	16	12	14	1.69
447608--447632	10	2.5	10	100	0	50	60	20	12	8	1.57
447675--447754	40	1.9	41	85	7	108	40	12	8	38	1.74
449070--449110	20	2.0	20	95	0	73	41	9	12	36	1.76
453659--453700	21	2.0	20	86	4	57	40	7	14	38	1.73
461785--461832	14	3.7	14	73	21	59	60	14	10	14	1.59
467501--467619	39	3.1	39	80	8	127	37	10	1	49	1.48
491978--492045	27	2.5	27	90	0	109	44	14	10	30	1.79
498035--498081	23	2.0	24	91	4	78	34	10	12	42	1.78
498339--498374	2	18.0	2	100	0	72	50	0	0	50	1.00
502084--502160	37	2.1	37	95	2	138	53	6	11	28	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504383--504407	12	2.1	12	100	0	50	40	20	16	24	1.91
506802--506874	37	2.0	38	92	7	125	20	28	31	19	1.97
513685--513754	35	2.0	35	100	0	140	20	31	31	17	1.95
513684--513747	20	3.5	20	68	27	68	21	29	34	14	1.93
514859--514888	6	5.0	6	91	0	51	36	16	13	33	1.88
519149--519180	11	2.9	11	100	0	64	9	18	15	56	1.66
521540--521571	2	16.0	2	100	0	64	50	0	0	50	1.00
526782--526879	48	2.0	49	94	2	171	31	8	17	42	1.78
529609--529694	41	2.1	41	93	0	145	45	4	4	45	1.45
532400--532429	11	2.9	10	90	9	51	80	0	0	20	0.72
532402--532442	18	2.3	17	87	8	55	75	2	0	21	0.92
535392--535421	12	2.5	12	100	0	60	30	26	0	43	1.55
537409--537441	2	17.0	2	93	6	59	48	0	0	51	1.00
542458--542482	9	2.8	9	100	0	50	32	24	8	36	1.84
542827--542889	23	2.8	22	85	7	81	49	17	20	12	1.79
547748--547807	16	3.8	16	75	0	57	48	26	15	10	1.76
547778--547835	16	3.6	16	81	4	55	48	25	15	10	1.77
550159--550188	2	15.0	2	100	0	60	50	0	0	50	1.00
552493--553363	83	10.5	83	80	1	789	30	18	16	34	1.93
552467--553340	249	3.5	248	84	2	1009	30	17	16	35	1.93
553473--553535	8	8.1	8	79	13	69	39	28	0	31	1.57
553465--553535	23	3.1	22	78	17	74	39	26	1	32	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553477--553535	15	3.9	15	90	2	91	42	27	0	30	1.56
554691--555039	178	2.0	170	93	6	594	35	21	6	36	1.79
555289--555375	23	3.7	23	80	3	111	25	25	27	21	2.00
555287--555385	47	2.1	47	100	0	198	29	22	24	24	1.99
555392--555609	103	2.1	103	93	0	382	36	22	13	27	1.92
556789--556835	23	2.0	24	95	4	87	48	29	0	21	1.50
559836--559881	2	24.0	2	91	8	78	47	0	0	52	1.00
559836--559881	21	2.2	21	100	0	92	47	0	0	52	1.00
559841--559888	23	2.1	23	96	0	87	50	0	0	50	1.00
559839--559888	21	2.3	22	93	6	84	50	0	0	50	1.00

Tables:   1   2   3   4