genome.fa.s2647.2.7.7.80.10.50.1000.3.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  3  of  26  ( 3011 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)
356505--356537	15	2.2	15	94	0	57	12	60	6	21	1.53
364131--364206	33	2.3	33	81	0	80	35	18	23	22	1.96
364150--364212	33	1.9	33	86	0	90	33	19	26	20	1.96
367547--367611	32	2.1	32	97	2	123	55	10	12	21	1.67
373992--374085	31	3.0	31	92	3	145	21	19	22	37	1.95
376660--376753	31	3.0	31	92	3	145	20	19	23	37	1.94
380737--380830	31	3.0	31	92	3	145	21	19	22	37	1.95
394020--394049	3	9.7	3	92	7	51	70	0	0	30	0.88
396582--396661	20	3.7	20	68	18	61	41	12	22	23	1.88
396569--396673	46	2.3	46	89	0	165	44	13	17	24	1.84
402538--402584	20	2.3	20	100	0	94	29	8	25	36	1.86
402843--403021	96	1.9	94	80	6	209	39	15	20	24	1.91
403435--403730	46	6.5	46	86	0	387	44	12	19	22	1.84
403521--403698	26	7.5	26	65	21	113	43	14	20	21	1.87
403597--403717	20	5.4	20	69	21	80	42	10	23	22	1.85
406582--406610	15	1.9	15	100	0	58	24	0	6	68	1.13
407933--407987	27	2.0	27	100	0	110	21	10	45	21	1.82
416531--416629	16	6.4	15	75	14	94	78	4	16	1	0.95
416539--416631	48	2.0	43	84	12	114	78	4	16	1	0.96
416531--416636	20	4.9	20	73	21	83	78	3	16	0	0.95
416633--416666	8	4.2	8	88	0	50	82	0	0	17	0.67
417336--417410	16	4.5	17	78	15	86	77	0	18	4	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417353--417407	23	2.3	24	78	3	67	76	0	20	3	0.94
417914--418171	43	5.9	43	69	10	146	30	17	18	34	1.94
417918--418303	132	2.9	132	84	2	463	30	16	19	33	1.94
425148--425191	2	22.0	2	100	0	88	50	0	0	50	1.00
426379--426440	2	31.0	2	100	0	124	50	0	0	50	1.00
428407--428530	23	5.4	23	85	0	131	46	24	11	17	1.81
428425--428530	46	2.3	46	91	0	176	50	23	9	16	1.75
428495--428598	34	3.1	33	75	4	93	48	18	14	19	1.82
428594--428656	24	2.7	23	80	7	81	44	17	14	23	1.85
429168--429206	20	2.0	20	84	0	51	35	33	10	20	1.86
433490--433529	20	2.0	20	100	0	80	25	35	20	20	1.96
433493--433536	20	2.2	20	91	0	70	29	34	13	22	1.93
440155--440209	21	2.6	21	85	0	74	10	30	38	20	1.87
444517--444754	124	1.9	122	87	3	343	31	13	7	47	1.72
448908--448982	31	2.4	30	82	8	80	41	12	16	30	1.84
449511--449582	37	1.9	37	86	5	101	36	12	9	41	1.76
449292--449655	166	2.2	163	78	9	380	42	13	13	31	1.82
449613--449671	31	1.9	31	96	3	111	44	11	13	30	1.80
449709--449846	36	3.8	36	85	3	181	35	13	17	34	1.88
449785--450136	107	3.3	103	78	12	385	40	10	16	32	1.83
451760--451806	24	1.9	25	87	12	71	0	21	8	70	1.14
458745--458831	43	2.1	41	84	4	111	45	9	14	29	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460932--460961	15	1.9	16	93	6	53	73	6	0	20	1.05
461106--461202	3	32.3	3	100	0	194	32	0	0	67	0.91
463006--463046	22	1.9	21	90	5	64	34	14	21	29	1.93
463392--463748	56	6.3	56	89	2	520	36	10	18	35	1.84
464790--464997	76	2.7	76	86	1	274	24	32	23	20	1.98
470769--470829	23	2.9	21	85	7	70	22	36	24	16	1.94
473431--473638	75	2.8	75	85	5	260	23	31	23	21	1.98
479765--479815	19	2.5	22	81	9	63	35	15	19	29	1.93
480144--480555	56	7.3	56	94	0	700	35	12	18	33	1.88
484204--484254	19	2.5	22	87	9	72	29	17	25	27	1.98
492327--492772	110	4.0	109	86	4	610	29	9	19	41	1.83
492345--492828	110	4.4	108	83	7	427	30	9	19	40	1.84
492827--492955	42	3.1	41	83	5	161	26	21	23	28	1.99
492961--493117	59	2.6	59	92	1	269	28	29	14	28	1.95
495168--495213	18	2.5	18	82	13	58	13	2	10	73	1.17
495184--495236	27	2.0	27	85	7	72	16	1	7	73	1.15
497738--497775	7	5.4	7	100	0	76	73	0	13	13	1.09
501303--501667	162	2.3	159	83	5	452	46	5	18	30	1.71
502448--502493	24	1.9	24	95	0	83	63	4	6	26	1.38
502781--502817	18	2.0	19	89	5	58	45	32	16	5	1.70
503410--503443	16	2.1	16	88	0	50	52	0	44	2	1.16
509146--509187	3	13.3	3	90	9	66	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509145--509195	16	3.5	15	84	12	70	29	0	1	68	1.00
509146--509187	19	2.2	19	100	0	84	30	0	0	69	0.89
509302--509374	25	2.9	25	95	0	128	39	19	15	26	1.90
511172--511215	22	2.0	22	81	0	52	27	4	15	52	1.63
512722--512783	32	2.0	32	93	3	108	16	14	9	59	1.60
515630--515664	17	2.1	16	89	5	52	68	5	25	0	1.11
516856--516915	4	15.0	4	92	0	93	50	23	0	26	1.50
517372--517611	105	2.3	103	84	7	299	30	19	12	37	1.88
517573--517676	36	3.0	34	79	6	111	31	20	12	35	1.90
517924--518042	27	4.3	27	82	11	152	30	10	15	43	1.80
517927--518054	56	2.3	57	82	6	163	32	10	14	42	1.81
518013--518069	29	1.9	29	85	3	78	36	7	12	43	1.69
518063--518219	52	3.0	52	97	0	287	31	14	17	36	1.90
518207--518269	29	2.1	30	91	2	101	36	7	14	41	1.75
518713--518797	31	2.7	30	80	10	91	28	17	15	38	1.90
519436--519489	28	1.9	28	92	0	90	22	14	16	46	1.84
519601--519795	46	4.5	45	70	18	153	26	27	20	26	1.99
519501--519825	126	2.5	129	91	3	514	25	29	20	24	1.99
520012--520058	16	2.7	18	84	15	64	29	0	0	70	0.88
520172--520242	24	2.9	25	89	6	119	39	18	16	25	1.91
521969--522012	22	2.0	22	81	0	52	27	4	15	52	1.63
524724--527526	6	481.3	6	89	9	4351	49	16	0	33	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528947--528998	11	4.7	11	77	15	54	55	1	1	40	1.22
528948--528988	21	2.0	20	85	4	55	53	2	0	43	1.13
528916--529007	32	3.0	31	87	4	123	52	3	1	43	1.24
529032--529090	17	3.2	18	75	15	57	37	3	5	54	1.39
529110--529176	33	2.0	33	100	0	134	40	5	0	53	1.25
529704--529801	20	4.8	20	77	3	88	36	23	18	21	1.95
529645--529801	41	3.9	41	70	11	126	38	25	17	18	1.93
529788--529958	20	8.6	20	84	5	107	35	26	18	20	1.95
529768--529977	60	3.5	58	80	7	208	37	25	17	20	1.94
529822--529977	20	7.8	20	87	4	174	35	25	17	21	1.95
529788--529977	40	4.8	40	86	5	208	36	25	17	20	1.94
530654--530700	24	2.0	24	87	8	69	25	14	21	38	1.92
533210--533315	19	5.7	19	74	14	96	43	19	20	16	1.88
533311--533353	19	2.3	19	84	8	52	16	16	23	44	1.86
533316--533386	19	3.9	19	70	19	62	12	19	19	47	1.81
533491--533527	14	2.6	14	91	0	65	45	21	0	32	1.52
534898--534984	21	4.3	20	66	16	54	22	22	29	24	1.99
535410--535496	14	5.5	14	68	24	57	47	21	21	9	1.79
535423--535516	19	5.5	18	67	24	69	47	21	20	10	1.79
535410--535516	33	3.2	33	93	0	187	46	21	21	10	1.80
535527--535638	33	3.5	33	91	2	174	10	20	23	45	1.82
535527--535654	17	7.8	17	73	21	114	10	21	23	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535750--536114	94	3.9	94	92	3	607	47	18	12	21	1.81
535750--536114	183	2.0	188	91	3	607	47	18	12	21	1.81
537730--537847	19	6.1	19	87	3	146	44	19	21	14	1.86
537860--537964	20	5.6	19	73	16	94	12	17	18	52	1.74
538522--538694	20	8.6	19	79	12	168	18	19	24	36	1.94
538524--538694	40	4.2	41	90	1	265	18	19	24	37	1.94
538521--538694	60	2.9	61	82	5	210	18	19	24	37	1.94
538524--538694	81	2.1	81	92	2	281	18	19	24	37	1.94
538524--538717	81	2.4	80	88	5	266	20	19	24	36	1.95
538785--538838	20	2.7	19	69	8	54	16	16	31	35	1.92

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