genome.fa.s7943.2.7.7.80.10.50.1000.3.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: VEPZ01007943.1 Hibiscus syriacus cultivar Beakdansim tig00110365_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1187827

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 611 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)
402542--402619	31	2.5	31	95	2	138	15	26	23	34	1.94
406029--406248	36	6.3	36	72	12	163	41	12	20	25	1.87
406060--406301	102	2.4	102	81	3	265	40	11	19	28	1.87
406417--406678	106	2.5	106	89	0	407	23	19	23	33	1.97
407271--407379	32	3.4	33	83	3	141	35	20	13	30	1.91
408479--408515	19	1.9	19	94	0	65	5	16	0	78	0.93
408457--408518	15	4.0	14	74	25	54	4	14	1	79	0.98
408474--408528	21	2.7	20	80	13	58	5	14	0	80	0.89
408806--408918	53	2.1	53	93	0	199	39	9	14	36	1.79
421405--421441	18	2.1	18	100	0	74	43	5	10	40	1.63
427769--427841	23	3.3	22	77	14	87	26	23	23	27	2.00
429635--429773	64	2.2	64	84	7	176	26	17	23	31	1.97
431022--431079	18	3.1	18	78	11	71	27	12	12	48	1.76
432422--432454	15	2.1	16	94	5	59	36	0	6	57	1.23
433438--433546	18	6.1	18	87	6	143	31	10	14	44	1.79
433440--433546	35	3.1	35	90	2	162	30	10	14	43	1.79
436077--436298	104	2.1	103	81	4	268	36	12	13	37	1.82
438006--438125	44	2.7	43	83	7	152	25	20	23	30	1.98
438513--438542	15	2.0	15	100	0	60	20	26	6	46	1.75
441414--441572	52	3.1	52	93	3	284	44	15	6	32	1.73
442636--442754	40	2.9	40	81	8	116	26	20	17	35	1.95
442830--442977	80	1.9	80	83	11	196	28	18	19	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442965--442993	12	2.3	13	94	5	51	44	34	13	6	1.71
443369--443421	26	2.0	26	88	0	79	52	15	13	18	1.74
444019--444096	3	26.0	3	100	0	156	66	0	0	33	0.92
446663--446689	6	4.5	6	100	0	54	14	0	70	14	1.17
449268--449300	2	16.5	2	100	0	66	51	0	0	48	1.00
449684--449723	19	2.0	21	85	9	57	35	15	7	42	1.75
457361--457390	15	2.0	15	93	0	51	30	0	0	70	0.88
460933--460974	14	2.9	15	82	6	52	42	9	21	26	1.83
466428--466623	74	2.6	74	81	3	198	36	22	19	20	1.95
466473--466623	74	2.0	75	85	1	205	35	24	19	19	1.95
466556--466696	42	3.4	42	91	0	219	39	24	19	17	1.92
468149--468198	24	2.2	23	83	16	61	20	2	2	76	0.99
470229--470306	33	2.4	33	78	4	86	42	33	10	14	1.79
470292--470354	33	1.9	33	93	0	108	39	25	6	28	1.80
478957--479181	123	1.8	123	85	0	317	42	10	9	37	1.72
480961--481018	3	19.7	3	78	3	55	60	0	0	39	0.97
481322--481849	112	4.6	113	86	6	633	28	18	14	38	1.90
481865--482095	76	3.0	76	93	0	381	34	20	19	25	1.96
482270--482471	37	5.5	37	74	3	194	39	13	16	30	1.87
482265--482471	73	2.8	73	94	1	362	39	13	16	30	1.88
482510--482833	165	2.0	164	90	1	515	36	12	14	36	1.84
483349--483426	22	3.5	22	85	3	111	38	15	11	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484570--484710	74	1.9	74	82	5	178	34	21	12	31	1.91
489735--489821	14	6.5	14	69	15	58	56	5	13	24	1.59
489747--489795	12	3.9	12	79	10	53	57	8	12	22	1.61
489737--489793	26	2.2	26	90	0	87	57	7	14	21	1.60
491935--492160	123	1.8	123	86	1	328	42	9	10	37	1.72
494002--494064	26	2.4	26	81	5	74	60	0	0	39	0.97
500167--500225	30	2.0	29	90	9	93	35	6	16	40	1.76
500301--500352	19	2.7	19	93	0	86	42	13	7	36	1.73
500441--500482	21	2.0	21	95	0	75	23	21	28	26	1.99
500511--500550	20	1.9	21	85	10	55	37	37	10	15	1.80
509137--509253	53	2.2	53	84	4	155	31	5	5	56	1.48
513622--513677	15	3.6	15	79	9	67	42	12	12	32	1.80
513625--513675	17	3.1	17	77	11	61	43	11	9	35	1.75
513848--513888	21	2.0	21	100	0	82	31	24	24	19	1.98
514096--514150	13	4.2	13	75	13	58	49	12	3	34	1.59
514136--514234	33	3.0	32	89	4	144	45	14	7	33	1.71
514229--514268	21	1.9	21	94	0	71	45	7	17	30	1.76
516549--516595	23	2.0	24	88	8	71	27	17	17	38	1.91
517757--517836	18	4.3	18	74	14	65	32	0	3	63	1.12
519581--519673	21	4.4	21	81	8	73	20	31	21	26	1.98
520189--520286	34	2.9	34	82	0	124	56	4	4	35	1.37
520687--521184	128	3.9	128	96	0	912	33	19	24	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521255--521295	8	5.2	8	82	5	57	36	29	0	34	1.58
524290--524327	13	3.0	13	80	7	51	44	0	0	55	0.99
524286--524353	35	2.0	35	83	13	88	47	0	1	51	1.09
526973--527016	16	2.8	16	86	3	63	43	0	0	56	0.99
527661--527731	29	2.4	29	100	0	142	39	26	9	23	1.86
528700--528730	16	1.9	16	93	0	53	51	6	0	41	1.27
530554--530598	21	2.1	21	88	8	65	24	0	2	73	0.95
530754--530798	18	2.6	18	85	3	56	48	2	0	48	1.13
536729--536798	34	2.1	32	86	5	95	32	15	30	21	1.94
540518--540559	21	2.0	21	85	0	57	30	23	21	23	1.99
545087--545130	21	2.2	20	83	4	52	15	20	2	61	1.45
556460--556498	20	2.0	20	85	10	53	28	20	17	33	1.96
561004--561073	21	3.1	21	73	15	68	15	18	0	65	1.27
565920--565981	3	20.7	3	93	6	108	30	0	0	69	0.89
567450--567491	18	2.4	17	88	7	66	19	4	4	71	1.22
572132--572199	30	2.3	30	84	0	82	42	19	5	32	1.75
579299--579329	14	2.2	14	100	0	62	74	12	0	12	1.08
580279--580502	43	4.9	46	70	11	163	26	30	18	24	1.98
580280--580595	141	2.2	142	92	0	508	26	29	18	25	1.98
580749--580849	3	33.7	3	92	7	170	30	0	0	69	0.89
582316--582357	18	2.4	17	88	7	66	19	4	4	71	1.22
585934--586015	2	41.5	2	97	2	157	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587265--587299	18	1.9	18	88	11	54	20	14	8	57	1.63
595006--595323	36	8.8	36	86	5	394	36	18	19	25	1.94
595005--595323	108	2.9	109	87	5	459	36	18	19	25	1.94
595496--595559	3	21.0	3	87	3	92	34	4	0	60	1.17
598306--598389	4	20.5	4	71	20	59	23	4	0	71	1.05
598272--598362	46	2.0	47	83	14	118	25	4	2	68	1.20
598301--598416	19	6.1	17	69	22	63	21	4	0	73	1.06
598345--598393	23	2.2	21	89	7	71	22	4	0	73	1.00
602446--602533	35	2.5	34	74	17	81	22	3	0	73	0.97
602489--602546	27	2.1	28	84	15	77	22	3	0	74	0.97
603507--603577	32	2.1	34	82	5	83	36	0	0	63	0.95
614918--614987	35	2.0	35	91	0	113	44	22	0	32	1.53
615486--615559	35	2.1	35	92	0	121	31	0	25	43	1.55
616147--616214	12	5.7	12	69	0	55	52	5	14	26	1.64
616138--616215	24	3.2	25	89	7	117	52	6	16	24	1.67
620328--620379	20	2.7	20	91	5	81	38	23	7	30	1.83
626862--627316	182	2.5	182	84	6	600	42	13	15	28	1.85
628010--628051	21	2.0	21	100	0	84	33	9	19	38	1.84
629425--629456	15	2.1	15	94	0	55	21	6	59	12	1.55
629540--629583	21	2.1	21	91	0	70	45	11	27	15	1.81
631464--631512	19	2.6	19	93	0	80	32	2	12	53	1.50
631754--632913	200	5.8	200	92	0	1863	37	15	15	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635269--635323	19	2.9	19	71	15	51	65	3	7	23	1.34
635410--635522	25	4.9	21	68	27	70	63	0	4	30	1.20
635404--635492	42	2.1	42	83	8	110	66	0	4	29	1.11
635726--635772	23	2.0	23	84	15	62	70	0	2	27	0.99
637051--637096	18	2.6	18	89	0	65	41	4	32	21	1.73
637051--637096	6	7.7	6	90	0	56	41	4	32	21	1.73
637051--637096	12	3.8	12	91	0	65	41	4	32	21	1.73
638546--638655	51	2.1	53	83	9	147	38	18	20	23	1.93
638399--638848	250	1.8	248	87	4	672	37	15	16	30	1.90
638712--639065	177	2.0	176	90	3	552	37	15	17	29	1.90

Tables:   1   2   3   4   5   6