genome.fa.s4507.2.7.7.80.10.50.1000.3.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: VEPZ01004507.1 Hibiscus syriacus cultivar Beakdansim tig00009942_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1776135

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 904 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)
396130--396308	7	25.6	7	76	17	135	9	15	0	74	1.05
404771--404830	23	2.6	23	75	17	61	38	5	16	40	1.71
410291--410321	2	15.5	2	100	0	62	51	0	0	48	1.00
416596--416625	14	2.1	14	100	0	60	33	23	6	36	1.81
417548--417973	213	2.0	211	99	0	834	30	18	19	31	1.96
421447--421551	52	2.0	52	100	0	210	38	12	11	38	1.79
424149--424173	2	12.5	2	100	0	50	52	0	0	48	1.00
424240--424293	25	2.2	25	93	0	90	24	1	7	66	1.27
425177--425202	11	2.4	11	100	0	52	23	7	0	69	1.14
425642--425917	93	3.0	92	88	3	401	33	24	13	27	1.93
426199--426316	21	5.7	21	77	4	132	24	14	28	32	1.94
426178--426321	41	3.5	41	92	0	234	27	15	26	31	1.96
426858--426895	19	2.0	19	94	0	67	28	31	5	34	1.80
427004--427060	26	2.2	26	80	0	69	54	0	5	40	1.23
427051--427091	13	3.3	13	83	10	59	78	2	0	19	0.87
427070--427120	21	2.5	21	81	9	61	72	0	0	27	0.85
427052--427120	11	6.2	11	72	18	54	75	1	0	23	0.89
427608--427646	19	2.0	21	85	10	55	28	2	2	66	1.18
436628--436707	23	3.7	22	82	14	96	22	30	27	20	1.98
436671--436707	19	1.9	19	94	0	65	24	32	27	16	1.96
436671--436713	19	2.3	19	88	8	61	20	30	32	16	1.95
441727--441821	31	3.1	31	80	3	111	34	21	17	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441955--441990	17	2.0	19	89	10	58	38	11	5	44	1.63
442479--442638	64	2.5	64	84	6	200	25	20	18	35	1.95
442604--442639	19	2.0	18	89	10	56	22	27	19	30	1.98
445841--445926	31	2.8	31	83	1	93	33	24	17	24	1.96
445854--445948	31	3.1	31	78	3	102	34	22	17	25	1.96
446082--446117	17	2.0	19	89	10	58	38	11	5	44	1.63
446606--446765	64	2.5	64	84	6	200	25	20	19	35	1.96
449484--449583	24	4.2	24	83	2	121	13	12	16	59	1.62
449556--449596	14	2.9	14	85	7	57	12	14	14	58	1.63
449979--450032	13	4.0	13	79	13	56	5	7	20	66	1.37
456128--456241	41	2.8	41	91	1	174	36	16	18	28	1.93
464830--465109	43	6.5	43	88	1	364	32	22	18	26	1.97
464834--465113	129	2.2	129	89	0	416	32	22	18	26	1.97
468322--468360	17	2.3	17	86	0	51	15	30	30	23	1.95
470788--470841	22	2.5	21	84	6	63	25	3	3	66	1.25
470788--470852	21	3.0	21	82	10	62	23	6	3	67	1.27
470918--470971	9	5.9	9	80	2	63	18	7	1	72	1.17
470816--470966	18	8.1	18	73	17	103	19	5	3	70	1.22
471069--471105	18	2.0	19	89	5	58	18	10	0	70	1.16
476739--476767	2	14.5	2	100	0	58	48	0	0	51	1.00
477546--477705	65	2.5	65	87	5	227	28	19	21	30	1.98
477546--477755	65	3.3	63	78	12	221	26	19	22	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478358--478413	28	2.0	27	83	10	69	51	23	5	19	1.67
486251--486305	19	2.9	19	97	0	101	27	14	27	30	1.95
501773--501823	20	2.7	19	77	17	61	13	29	29	27	1.94
501818--501858	14	3.1	14	79	13	59	19	48	21	9	1.77
501825--501871	22	2.2	21	92	3	76	19	46	23	10	1.80
508986--509060	19	3.8	19	75	18	57	20	24	24	32	1.98
509013--509064	19	2.7	19	79	5	61	17	23	26	32	1.96
509063--509122	5	11.8	5	82	10	77	20	53	21	5	1.64
509062--509129	22	3.2	22	87	6	97	19	50	22	8	1.75
509063--509122	27	2.4	24	91	8	93	20	53	21	5	1.64
513725--513764	19	2.1	19	90	0	62	17	40	20	22	1.92
513746--513816	10	6.7	10	73	9	52	19	29	28	22	1.98
516429--516597	42	4.1	42	79	9	186	18	20	24	37	1.94
516441--516553	37	2.9	37	86	6	145	17	21	26	34	1.95
517366--517452	30	2.9	30	75	14	74	45	5	16	32	1.70
519005--519053	24	2.0	24	96	0	89	34	12	8	44	1.71
519587--519657	21	3.3	21	65	27	58	40	8	19	30	1.81
519578--519899	45	7.2	45	91	1	504	40	6	21	31	1.79
519652--519725	24	3.2	23	67	18	64	48	2	16	32	1.60
519578--519899	134	2.4	135	91	1	513	40	6	21	31	1.79
519578--519899	89	3.6	89	91	1	502	40	6	21	31	1.79
520288--520331	21	2.1	21	91	0	70	27	22	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520404--520446	22	2.0	22	85	0	59	23	20	13	41	1.88
522077--522111	17	2.1	17	100	0	70	42	5	11	40	1.65
522686--522808	6	20.8	6	73	20	82	78	0	18	1	0.88
522694--522809	18	6.6	17	76	12	94	79	0	18	0	0.84
522732--522802	14	4.8	16	80	16	75	81	0	16	1	0.76
522755--522811	1	57.0	1	75	0	51	87	0	12	0	0.54
522696--522801	56	1.9	55	83	11	135	78	0	19	0	0.87
522683--522811	39	3.2	38	76	16	125	79	0	17	1	0.85
522683--522811	13	9.4	13	73	12	98	79	0	17	1	0.85
523688--523722	18	2.1	17	89	10	54	42	0	17	40	1.49
525434--525487	3	17.7	3	81	11	65	62	0	3	33	1.12
525461--525563	45	2.3	46	74	12	106	66	2	7	23	1.32
525628--525697	2	35.5	2	97	2	133	50	0	0	50	1.00
529936--530038	41	2.5	41	75	13	111	30	17	19	33	1.95
531129--531194	3	22.0	3	84	6	89	39	0	0	60	0.97
532789--532851	27	2.3	26	81	7	72	49	1	3	46	1.27
536643--536674	15	2.1	15	94	0	55	28	18	6	46	1.73
544016--544064	9	5.2	9	79	16	55	85	0	14	0	0.59
544021--544065	7	6.6	7	87	12	51	84	0	15	0	0.62
544016--544064	11	4.4	11	78	14	55	85	0	14	0	0.59
545060--545348	93	3.1	92	93	3	474	30	15	20	34	1.93
546135--547140	224	4.5	223	91	2	1445	38	13	18	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546135--547140	112	9.0	111	85	4	1215	38	13	18	29	1.89
547357--547422	3	22.0	3	87	0	96	39	0	0	60	0.97
548812--548859	23	2.0	24	88	4	71	41	0	0	58	0.98
549013--549074	27	2.3	26	81	10	72	50	1	3	45	1.27
549797--549851	21	2.6	21	91	0	83	21	5	18	54	1.63
554909--554986	31	2.6	31	79	4	88	44	15	1	38	1.55
557576--557669	49	1.9	49	93	0	161	17	31	34	17	1.92
557847--557940	49	1.9	49	93	0	161	17	31	34	17	1.92
575493--575541	2	25.0	2	84	12	57	48	4	0	46	1.20
575912--575952	19	2.2	19	86	8	57	53	0	0	46	1.00
577213--577259	2	24.5	2	91	8	80	51	0	0	48	1.00
577213--577256	17	2.6	17	100	0	88	52	0	0	47	1.00
577481--577672	96	2.0	96	100	0	384	26	28	25	20	1.99
580510--580571	26	2.4	26	75	21	67	54	3	3	38	1.32
581852--582272	228	1.8	226	81	5	517	35	12	11	40	1.79
583506--583545	18	2.2	18	90	0	62	22	7	20	50	1.73
584843--584879	20	1.9	19	89	10	58	45	10	24	18	1.81
585026--585099	15	5.1	15	71	15	66	55	2	1	40	1.22
585025--585116	42	2.2	42	94	1	159	53	4	1	41	1.28
589065--589096	14	2.1	16	88	11	50	65	3	12	18	1.38
589777--589949	86	2.0	86	100	0	346	31	18	4	45	1.70
590633--590682	18	2.8	18	96	0	91	14	10	54	22	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590633--590688	18	3.1	18	89	5	87	14	8	55	21	1.66
590816--590904	39	2.3	39	78	0	97	14	13	59	12	1.61
592203--592326	66	1.9	66	96	0	230	32	30	8	29	1.86
593008--593092	41	2.1	41	100	0	170	23	16	9	50	1.74
600822--600902	8	10.1	8	75	10	67	67	3	0	28	1.07
600819--600898	23	3.7	20	75	17	70	66	3	0	30	1.09
610723--610762	2	20.0	2	100	0	80	50	0	0	50	1.00
613089--613130	2	21.0	2	100	0	84	50	0	0	50	1.00
622113--622198	25	3.4	24	70	13	66	44	2	5	47	1.39
622101--622197	50	1.9	51	87	2	142	43	2	4	50	1.33

Tables:   1   2   3   4   5   6   7   8