genome.fa.s8076.2.7.7.80.10.50.1000.3.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: VEPZ01008076.1 Hibiscus syriacus cultivar Beakdansim tig00110578_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1136582

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 647 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)
453714--453781	30	2.3	30	100	0	136	19	47	14	19	1.83
456936--456980	22	2.0	22	91	0	72	26	15	22	35	1.94
460653--460687	13	2.7	13	86	0	52	65	2	2	28	1.21
460934--460985	2	26.0	2	100	0	104	50	0	0	50	1.00
472174--472251	15	5.2	15	70	9	61	64	1	2	32	1.15
479212--479244	2	16.5	2	100	0	66	48	0	0	51	1.00
482236--482262	14	1.9	14	100	0	54	40	0	0	59	0.98
483922--483951	7	4.3	7	100	0	60	13	13	30	43	1.82
488913--488972	28	2.1	28	100	0	120	30	23	16	30	1.96
491528--491574	24	2.0	24	95	0	85	8	12	23	55	1.64
491504--491574	34	2.1	34	82	10	83	11	12	22	53	1.70
491533--491588	24	2.3	24	84	0	67	12	10	17	58	1.61
491687--491736	22	2.2	23	89	3	75	50	26	0	24	1.50
491756--491806	7	7.4	7	78	8	52	47	29	0	23	1.52
491756--491807	27	1.9	27	84	7	70	46	30	0	23	1.53
491760--491833	35	2.1	35	87	7	107	45	29	1	22	1.61
491756--491807	14	3.8	14	78	14	63	46	30	0	23	1.53
492982--493026	11	4.0	11	78	16	56	31	24	17	26	1.97
493056--493088	16	2.1	16	94	0	57	12	9	24	54	1.66
493274--493346	16	4.7	16	91	3	105	12	10	17	58	1.61
493406--493436	16	1.9	16	100	0	62	6	12	22	58	1.58
493306--493568	100	2.6	102	96	1	485	33	11	14	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493508--493540	16	2.1	16	100	0	66	6	12	24	57	1.57
495966--496051	26	3.4	26	66	23	74	18	12	20	47	1.81
496078--496109	13	2.5	13	94	0	55	21	6	37	34	1.79
495337--496412	546	2.0	533	96	2	1963	20	12	20	47	1.81
502094--502122	2	14.5	2	100	0	58	51	0	0	48	1.00
506025--506604	51	11.1	51	86	5	651	29	25	16	28	1.96
506030--506583	158	3.5	157	88	2	720	28	25	16	29	1.97
507734--507776	18	2.5	17	80	20	54	6	11	0	81	0.87
507745--507818	25	3.4	21	77	15	78	5	12	0	82	0.83
507743--507807	22	2.9	24	80	14	77	4	15	0	80	0.88
507743--507855	21	5.1	22	74	19	83	6	16	0	76	1.04
507748--507851	7	14.3	7	68	20	54	6	15	0	76	1.03
507769--507849	42	1.9	42	82	5	101	6	17	1	75	1.07
507749--507826	30	2.6	28	80	11	84	5	12	1	80	0.93
524719--524757	18	2.2	18	90	0	60	33	10	33	23	1.88
541792--541877	39	2.2	38	89	2	127	22	5	27	44	1.75
541806--541887	39	2.1	39	88	2	121	21	4	28	45	1.73
542949--542990	20	2.1	20	100	0	84	26	14	14	45	1.83
546610--546732	62	2.0	63	91	4	205	38	22	19	19	1.94
546610--546732	32	4.0	31	91	6	196	38	22	19	19	1.94
550731--550853	31	4.0	31	95	2	212	38	22	19	19	1.94
553846--553882	19	1.9	19	88	0	56	59	5	0	35	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558288--558314	13	2.1	13	100	0	54	29	7	7	55	1.55
563717--563750	2	17.0	2	100	0	68	50	0	0	50	1.00
567490--567521	15	2.1	15	94	0	55	9	25	12	53	1.68
568273--568304	16	1.9	17	93	6	57	40	18	3	37	1.67
569420--569457	20	1.9	20	100	0	76	23	28	10	36	1.88
569422--569492	36	2.0	36	85	0	97	28	25	5	40	1.78
569421--569472	16	2.9	18	86	11	63	25	26	9	38	1.86
574769--574815	20	2.3	20	92	0	76	34	23	19	23	1.97
574806--574854	20	2.5	20	96	0	89	44	24	12	18	1.84
575009--575059	22	2.3	22	93	0	84	19	43	15	21	1.88
577466--577569	21	5.0	21	75	8	104	19	36	19	25	1.95
577464--577582	42	2.8	42	84	5	143	19	36	20	24	1.95
577468--577582	21	5.5	20	75	10	88	19	36	20	23	1.95
578932--578964	13	2.4	14	95	5	59	30	0	21	48	1.50
578943--579094	64	2.4	64	87	4	216	26	2	17	53	1.56
579153--579256	20	5.2	20	78	1	102	34	24	20	21	1.96
581908--581942	12	2.9	12	91	0	52	14	0	28	57	1.38
582711--582839	20	6.5	19	71	15	66	34	14	21	29	1.93
582735--582883	40	3.7	40	76	7	122	32	13	23	30	1.93
584072--584145	23	3.2	24	76	17	68	35	1	5	58	1.30
591368--591393	2	13.0	2	100	0	52	50	0	0	50	1.00
592159--592199	21	1.9	22	85	5	57	56	9	0	34	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605409--605459	6	8.3	6	79	12	59	78	1	15	3	0.99
612985--613028	16	2.6	17	75	7	54	43	0	0	56	0.99
613464--613513	2	25.0	2	100	0	100	50	0	0	50	1.00
613788--613873	26	3.3	25	77	6	91	63	3	3	29	1.27
613805--613873	21	3.3	21	77	4	77	63	2	4	28	1.28
613990--614148	77	2.1	77	95	0	282	25	18	8	47	1.76
616624--616771	24	6.3	24	86	3	194	22	20	23	33	1.98
617597--617647	21	2.4	21	86	0	84	37	27	15	19	1.92
617831--617855	13	1.9	13	100	0	50	60	16	0	24	1.36
618238--618357	54	2.2	55	85	4	154	31	22	16	29	1.96
623291--623375	29	3.0	29	84	1	100	28	1	21	49	1.57
623418--623475	29	2.0	29	82	3	71	32	3	13	50	1.59
623560--623620	25	2.4	25	91	0	95	27	8	9	54	1.62
630473--630515	13	3.3	13	83	0	59	20	44	18	16	1.87
630523--630592	29	2.4	28	79	9	77	24	5	25	44	1.76
630523--630605	30	2.8	29	71	10	69	21	4	22	50	1.67
630647--630717	29	2.4	29	88	0	97	29	4	15	50	1.63
631433--631467	7	5.0	7	96	0	61	40	14	14	31	1.86
636636--636667	16	2.0	16	100	0	64	18	18	25	37	1.94
638481--638523	21	2.1	21	86	4	61	13	4	34	46	1.65
638826--638877	25	2.1	25	89	7	79	73	0	9	17	1.09
639920--640015	24	4.2	24	77	17	91	40	2	0	57	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639948--640010	3	21.0	3	74	6	56	39	1	0	58	1.07
640415--640469	21	2.6	21	94	0	92	21	29	23	25	1.99
641439--641465	2	13.5	2	100	0	54	48	0	0	51	1.00
641943--641975	17	2.0	17	88	5	50	78	3	0	18	0.87
641831--642102	144	1.9	145	93	3	474	41	6	6	45	1.56
641858--642248	144	2.7	142	83	5	425	41	7	7	44	1.59
658009--658046	20	1.9	20	100	0	76	36	10	21	31	1.87
660016--660070	22	2.7	20	83	10	67	38	10	12	38	1.79
660792--660889	45	2.2	45	88	0	142	26	24	19	29	1.98
660731--661114	122	3.1	122	92	1	597	28	20	19	30	1.97
660914--661011	45	2.2	45	85	3	126	27	23	18	30	1.98
661033--661127	45	2.1	45	84	3	120	28	20	18	32	1.96
662672--662785	2	56.5	2	92	1	174	45	1	0	51	1.17
663151--663188	19	2.0	20	89	5	60	31	0	0	68	0.90
663106--663400	149	1.9	152	90	4	470	38	5	6	49	1.52
663134--663540	149	2.8	146	77	14	402	39	6	6	46	1.56
663560--663608	12	4.2	12	82	10	66	57	2	0	40	1.10
663560--663611	10	4.7	10	84	15	59	55	1	0	42	1.10
670149--670190	21	2.0	20	86	4	57	38	14	7	40	1.73
670552--670662	20	5.6	20	71	7	75	43	27	15	13	1.84
670552--670683	60	2.2	58	84	6	158	40	28	15	15	1.88
670613--670842	20	11.5	20	80	5	223	36	24	18	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
671744--671768	12	2.1	12	100	0	50	72	0	28	0	0.86
674051--674319	19	15.4	19	76	18	282	46	17	21	13	1.83
674051--674341	33	8.5	33	79	14	313	46	17	22	13	1.83
674051--674319	52	5.2	52	87	6	375	46	17	21	13	1.83
674348--674463	53	2.2	52	92	1	196	14	23	17	44	1.85
674366--674463	19	5.4	19	80	13	125	15	21	16	46	1.83
674428--674471	19	2.3	19	92	0	70	18	20	15	45	1.85
674570--674605	14	2.6	14	86	4	56	44	22	0	33	1.53
676583--676639	14	3.7	14	77	20	60	45	22	21	10	1.82
676564--676656	33	2.8	33	95	0	168	47	21	20	10	1.80

Tables:   1   2   3   4   5   6