genome.fa.s5680.2.7.7.80.10.50.1000.3.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: VEPZ01005680.1 Hibiscus syriacus cultivar Beakdansim tig00013285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1821426

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 720 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)
528605--528682	41	1.9	41	83	0	102	41	21	15	21	1.90
530531--530575	18	2.5	18	85	0	63	26	42	15	15	1.87
531046--531091	20	2.3	20	84	0	56	39	26	19	15	1.91
531057--531112	20	2.8	20	81	2	69	39	21	23	16	1.92
531101--531190	14	5.9	14	73	19	81	47	25	18	7	1.75
531085--531195	32	3.4	32	94	1	195	46	24	19	9	1.78
531202--531337	19	7.6	19	78	10	85	13	19	24	42	1.87
531224--531263	14	2.9	14	100	0	80	7	15	27	50	1.70
531264--531318	20	2.8	19	89	5	83	16	25	23	34	1.95
533190--533225	14	2.6	14	90	0	54	30	0	22	47	1.52
533331--533398	14	4.2	15	73	22	50	47	19	20	13	1.82
533341--533388	18	2.6	19	93	6	89	47	16	20	14	1.82
533953--534029	14	4.7	15	74	22	59	45	19	22	12	1.84
533963--534029	18	3.8	19	81	18	92	46	17	22	13	1.83
534445--534480	14	2.6	14	90	0	54	30	0	22	47	1.52
534591--534667	14	4.7	15	74	22	59	45	19	22	12	1.84
534601--534667	18	3.8	19	81	18	92	46	17	22	13	1.83
532940--534905	638	3.1	639	96	2	3719	32	12	19	35	1.90
535643--535740	19	5.7	19	69	22	90	43	19	24	12	1.85
535643--535736	33	2.8	33	98	0	179	43	19	24	12	1.85
535736--535778	20	2.2	20	87	4	61	16	18	23	41	1.89
535764--535797	14	2.4	14	85	0	50	8	23	20	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535919--535955	14	2.6	14	91	0	65	45	24	0	29	1.53
539412--539596	19	10.1	19	75	14	165	43	21	21	12	1.86
539412--539596	33	5.1	38	80	10	165	43	21	21	12	1.86
539592--539636	19	2.4	19	92	0	72	8	15	26	48	1.74
540184--540277	20	4.7	20	77	2	80	23	17	24	35	1.95
540266--540361	41	2.3	41	98	0	147	18	23	17	39	1.92
540266--540358	20	4.6	20	78	4	96	18	24	18	38	1.92
541547--541725	93	1.9	93	88	0	268	16	22	23	37	1.93
543204--543285	43	1.9	43	89	0	128	36	19	21	21	1.95
543204--543317	43	2.7	43	82	5	117	35	17	21	26	1.95
550314--550342	2	14.5	2	100	0	58	51	0	0	48	1.00
554668--554692	8	3.1	8	100	0	50	36	40	12	12	1.79
556523--556555	15	2.2	15	94	0	57	9	69	15	6	1.34
558331--558380	2	25.0	2	100	0	100	50	0	0	50	1.00
558665--558705	20	2.0	20	86	9	57	26	7	2	63	1.33
559320--559353	16	2.1	16	88	0	50	50	8	8	32	1.64
559375--559423	20	2.5	20	93	3	82	28	26	12	32	1.92
568820--568853	18	1.9	18	88	5	52	29	20	0	50	1.49
572556--572589	16	2.1	17	88	5	52	76	5	17	0	0.98
574014--574103	38	2.5	34	78	15	108	47	0	0	52	1.00
574216--574240	6	4.2	6	100	0	50	0	64	16	20	1.30
583895--584699	401	2.0	402	99	0	1576	29	19	18	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592098--592122	2	12.5	2	100	0	50	52	0	0	48	1.00
595276--595352	37	2.1	37	85	4	102	48	1	3	46	1.28
595498--595535	20	1.9	20	88	0	58	21	26	10	42	1.85
596817--596880	33	1.9	33	96	0	119	31	28	12	28	1.93
601220--601272	26	2.0	26	100	0	106	26	0	11	62	1.29
601657--601687	16	1.9	16	93	0	53	51	16	9	22	1.73
602493--602525	16	2.1	16	100	0	66	57	24	12	6	1.57
602590--602664	10	7.7	10	67	21	52	57	20	12	10	1.64
602594--602658	16	4.1	16	91	0	112	56	21	12	9	1.63
603388--603462	24	3.1	24	90	3	107	56	22	10	10	1.64
603388--603438	14	3.9	14	75	19	56	56	19	11	11	1.65
603407--603463	14	4.4	14	76	17	59	54	24	12	8	1.65
603398--603442	10	4.1	10	79	20	54	57	20	11	11	1.63
604139--604200	29	2.1	29	85	11	81	40	3	0	56	1.15
606292--606350	31	1.9	31	92	0	100	25	15	16	42	1.88
615704--615733	14	2.1	14	100	0	60	53	0	0	46	1.00
616698--616750	10	5.7	10	86	8	60	35	0	15	49	1.45
616698--616750	14	3.9	14	75	9	56	35	0	15	49	1.45
616705--616749	8	5.4	8	91	5	63	37	0	11	51	1.38
631347--631389	22	1.9	23	85	4	61	32	2	18	46	1.62
641099--641136	19	2.0	19	100	0	76	21	21	31	26	1.98
642406--642430	12	2.1	12	100	0	50	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644289--644362	35	2.1	35	87	0	103	41	21	1	35	1.62
644861--644931	35	2.0	36	86	2	99	32	0	23	43	1.54
645931--645973	22	2.0	22	85	0	59	48	4	6	39	1.51
647606--647678	34	2.1	35	84	2	94	34	0	20	45	1.52
650375--650430	20	2.8	20	81	10	69	32	19	5	42	1.74
653816--653873	25	2.3	25	100	0	116	32	29	15	22	1.95
655042--655109	22	3.2	21	78	17	70	30	1	17	50	1.55
662109--662152	21	2.1	21	100	0	88	22	15	29	31	1.95
663887--663922	15	2.4	15	90	0	54	58	2	0	38	1.13
665208--665232	2	12.5	2	100	0	50	48	0	0	52	1.00
668619--668656	14	2.7	14	87	0	58	7	28	39	23	1.83
669481--669538	20	2.9	20	97	0	107	24	12	20	43	1.86
669448--669704	77	3.3	75	89	4	338	26	14	20	38	1.91
669653--669693	20	2.0	20	95	0	73	26	17	17	39	1.91
675847--675880	17	2.1	16	88	5	50	44	0	0	55	0.99
677481--677518	13	2.7	14	84	8	51	15	7	15	60	1.57
684170--684279	56	2.1	53	89	8	170	34	24	15	25	1.95
687499--687528	15	2.0	15	93	0	51	20	43	20	16	1.88
688286--688550	133	2.0	133	99	0	521	25	33	17	23	1.96
688725--688751	2	13.5	2	100	0	54	51	0	0	48	1.00
689981--690023	2	21.5	2	100	0	86	48	0	0	51	1.00
693058--693100	6	7.5	6	94	2	54	0	16	58	25	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693186--693242	19	2.9	19	76	5	60	36	21	17	24	1.94
698309--698368	31	2.0	31	86	3	86	36	15	30	18	1.91
698663--698696	7	5.0	7	85	7	52	67	0	0	32	0.91
698665--698689	13	1.9	13	100	0	50	64	0	0	36	0.94
700785--702529	165	10.5	165	82	6	1751	24	20	24	29	1.99
700746--702529	249	7.1	247	86	4	1912	24	20	24	29	1.99
700792--702529	414	4.2	412	84	4	2138	24	20	24	29	1.99
705553--705596	17	2.4	19	92	7	74	65	11	11	11	1.47
707078--707111	7	5.0	7	85	7	52	67	0	0	32	0.91
707080--707104	13	1.9	13	100	0	50	64	0	0	36	0.94
722193--722305	57	2.0	57	98	0	217	46	10	8	34	1.70
722806--722878	23	3.2	23	88	0	101	38	20	5	35	1.76
723243--723315	23	3.2	23	90	0	110	39	20	5	34	1.76
723728--723800	23	3.2	23	96	0	128	36	21	6	34	1.81
724218--724290	23	3.2	23	92	0	119	38	21	5	34	1.77
723237--724644	490	2.9	489	95	0	2538	40	10	6	41	1.67
727120--727875	183	4.1	183	94	0	1316	34	16	14	35	1.89
729083--729176	12	7.8	12	86	0	125	20	31	8	39	1.82
729083--729176	6	15.7	6	78	4	82	20	31	8	39	1.82
730030--730076	20	2.4	19	79	10	58	21	17	8	53	1.70
730211--730257	20	2.4	19	82	10	67	19	17	10	53	1.72
729997--730375	181	2.1	181	91	2	607	28	16	13	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
733030--733059	13	2.3	13	100	0	60	20	23	23	33	1.97
743062--743151	47	2.0	45	81	16	105	48	1	2	47	1.21
743153--743199	22	2.1	23	84	4	60	51	0	4	44	1.21
743126--743205	32	2.4	34	82	12	96	48	0	3	47	1.19
743161--743204	22	2.0	22	82	8	54	54	0	2	43	1.12
744416--744506	17	5.6	17	72	16	59	47	1	2	49	1.21
744892--744939	23	2.1	23	92	0	78	39	2	0	58	1.10
771807--771845	14	2.9	14	88	3	53	46	7	0	46	1.31
771827--771864	19	2.0	20	89	5	60	44	10	2	42	1.52
773991--774041	28	1.9	27	84	11	70	41	0	1	56	1.10

Tables:   1   2   3   4   5   6