genome.fa.s9350.2.7.7.80.10.50.1000.2.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: VEPZ01009350.1 Hibiscus syriacus cultivar Beakdansim tig00113145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2139524

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1079 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)
464302--464456	65	2.4	64	82	3	177	30	18	21	29	1.97
464887--464979	21	4.6	20	78	4	96	40	18	23	17	1.90
464887--464979	41	2.3	41	98	0	177	40	18	23	17	1.90
464906--465040	41	3.3	41	80	8	125	38	21	20	19	1.94
464968--465082	20	5.7	19	78	11	86	34	24	17	23	1.96
465250--465293	22	2.0	22	90	0	70	20	43	15	20	1.88
465557--465594	20	1.9	20	88	0	58	13	15	21	50	1.78
466914--466958	18	2.5	18	88	0	72	26	44	15	13	1.83
467440--467492	20	2.7	20	87	0	70	41	24	18	15	1.89
467528--467590	14	4.3	14	79	16	74	49	23	15	11	1.77
467479--467601	32	3.8	33	91	2	187	48	20	17	13	1.80
467618--467675	14	3.9	14	77	16	62	8	17	27	46	1.77
467613--467691	32	2.4	32	93	2	131	10	18	25	45	1.81
467634--467733	19	5.5	19	77	12	77	14	20	22	44	1.86
467676--467730	20	2.8	19	89	5	83	18	23	21	36	1.95
468099--468180	42	2.0	42	87	0	119	21	42	13	21	1.87
469599--469634	14	2.6	14	90	0	54	30	0	22	47	1.52
469751--469818	19	3.8	19	85	14	101	47	17	22	13	1.82
469837--469894	20	2.9	20	94	0	98	17	22	22	37	1.93
470954--471007	24	2.2	24	90	0	81	24	16	20	38	1.92
471182--471206	12	2.1	12	100	0	50	72	0	28	0	0.86
471882--471934	20	2.7	20	93	0	88	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471943--471996	20	2.7	20	97	0	99	25	18	24	31	1.97
471883--471999	61	1.9	61	85	0	162	23	17	24	33	1.97
471883--472017	61	2.2	61	81	2	155	22	20	24	32	1.98
472067--472107	21	2.0	21	85	0	55	34	31	17	17	1.93
472372--472408	14	2.8	14	88	8	51	48	5	5	40	1.49
472713--472760	19	2.6	18	81	15	62	56	20	0	22	1.43
476333--476378	19	2.4	19	100	0	92	32	21	21	23	1.98
480581--480716	65	2.1	65	87	4	195	29	17	22	30	1.97
481255--481290	12	2.9	12	87	4	54	33	0	33	33	1.58
481412--481471	22	2.7	22	75	12	59	28	18	21	31	1.97
481457--481501	15	3.0	15	93	0	81	26	20	22	31	1.98
483765--483825	32	1.9	32	82	0	77	24	27	13	34	1.93
484240--484302	22	2.8	22	80	2	72	25	17	23	33	1.96
500478--500519	20	2.1	21	86	8	61	40	2	2	54	1.26
500727--500773	23	2.1	22	92	4	76	55	0	0	44	0.99
502084--502141	23	2.4	23	83	13	64	1	10	8	79	1.01
502682--502721	17	2.4	17	100	0	80	57	0	25	17	1.40
503252--503302	19	2.6	20	90	3	77	45	5	9	39	1.62
504154--504190	15	2.5	15	90	0	65	51	13	10	24	1.73
505722--505771	19	2.5	20	93	3	84	46	6	14	34	1.69
507560--507603	21	2.0	21	82	13	52	56	9	11	22	1.62
509036--509076	18	2.2	19	91	4	66	0	12	4	82	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509847--509896	19	2.5	20	83	3	66	50	6	14	30	1.66
514084--514110	12	2.2	12	100	0	54	77	0	22	0	0.76
521879--521931	15	3.2	16	78	19	56	49	1	3	45	1.31
529141--529176	17	2.0	18	89	10	56	61	0	27	11	1.30
529560--529598	16	2.4	16	95	0	69	23	10	35	30	1.88
529570--529617	16	3.3	13	85	14	51	22	4	35	37	1.74
539296--539345	17	2.7	20	76	23	63	14	14	0	72	1.14
539300--539366	25	2.7	22	77	18	62	11	14	0	73	1.11
539300--539364	13	5.2	13	76	14	73	12	13	0	73	1.09
539571--540065	44	11.1	45	73	6	220	35	15	20	28	1.93
539571--539893	89	3.6	89	78	5	246	36	15	20	27	1.93
539580--539972	178	2.2	178	79	6	388	34	16	20	28	1.94
539942--540065	46	2.7	46	92	3	196	34	15	19	30	1.93
546852--546952	25	4.0	25	85	0	130	31	24	15	27	1.96
552635--552666	3	10.7	3	100	0	64	65	0	0	34	0.93
553455--553536	32	2.6	32	98	0	155	24	10	28	36	1.89
554729--554798	24	2.9	24	79	8	79	50	4	2	42	1.37
554878--554941	28	2.4	27	78	14	78	45	0	1	53	1.10
554829--554913	37	2.3	36	80	11	93	47	1	0	51	1.08
554890--554955	29	2.2	29	82	12	73	45	0	6	48	1.27
555614--555675	21	2.7	24	76	18	69	45	1	0	53	1.10
555641--555713	37	2.0	36	84	12	96	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556294--556345	24	2.2	24	83	16	74	55	3	0	40	1.18
556409--556475	33	2.1	30	81	13	73	47	0	2	49	1.16
553544--556629	800	4.0	773	87	8	4407	44	8	8	38	1.66
556575--557056	200	2.4	200	83	4	611	39	13	16	30	1.88
557058--557393	87	3.9	87	94	0	600	33	15	9	41	1.80
557132--557183	23	2.3	23	93	0	86	32	21	7	38	1.82
557229--557273	23	2.0	23	90	0	72	37	22	8	31	1.85
557226--557283	23	2.4	24	77	8	64	34	17	8	39	1.80
557306--557357	23	2.3	23	86	0	68	34	19	5	40	1.75
557853--557917	23	2.8	23	97	0	121	30	9	21	38	1.85
557912--558634	199	3.6	197	82	6	872	30	15	14	39	1.87
561105--561153	19	2.6	19	83	0	71	53	8	4	34	1.50
562976--563265	155	1.9	155	86	0	418	28	13	13	44	1.82
563132--563666	200	2.7	200	84	3	650	32	13	13	40	1.83
568010--568826	202	4.1	198	85	5	1063	30	17	15	36	1.90
568010--568829	400	2.1	397	86	5	1118	30	17	15	36	1.90
568680--568967	153	1.9	153	88	0	432	30	14	14	39	1.86
568987--569054	15	4.6	15	92	3	102	25	13	22	39	1.90
569366--569412	19	2.5	19	96	0	85	55	10	2	31	1.46
570970--571008	18	2.2	18	95	0	69	5	33	2	58	1.33
571192--571291	33	3.0	33	94	0	173	24	46	1	29	1.59
571326--571366	21	2.0	21	90	0	64	17	26	12	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571742--571796	24	2.5	22	81	18	62	47	3	0	49	1.19
573758--574431	182	3.7	182	90	1	996	27	16	15	40	1.89
575527--575593	19	3.3	19	67	25	55	22	2	20	53	1.59
575498--575621	43	2.9	43	95	2	214	21	2	21	54	1.57
575498--575565	19	3.0	24	62	27	58	23	1	22	52	1.55
575503--575574	24	3.2	24	65	25	66	20	1	25	52	1.54
575763--575826	26	2.4	27	79	10	69	45	12	15	26	1.82
577722--577788	21	3.2	21	70	4	64	31	19	14	34	1.92
577719--577813	41	2.3	41	80	7	120	33	17	15	32	1.92
590957--591173	112	1.9	112	88	1	328	30	16	18	34	1.93
598621--598728	54	2.0	55	85	8	150	31	26	12	28	1.93
604944--605162	95	2.3	96	84	3	264	29	16	25	28	1.97
605487--605877	54	7.2	54	87	1	541	28	19	18	32	1.96
611938--612160	95	2.4	95	81	3	263	31	16	24	27	1.96
612489--612878	54	7.2	54	85	2	534	28	18	19	32	1.96
613534--613589	20	2.6	23	81	10	66	32	21	16	30	1.95
619011--619187	89	2.0	90	93	1	302	45	5	11	37	1.65
625816--625989	89	2.0	89	90	2	278	45	4	11	37	1.61
628006--628061	18	3.1	18	86	0	85	25	33	17	23	1.96
634084--634114	4	7.8	4	100	0	62	77	0	0	22	0.77
643510--643557	23	2.1	23	84	0	60	39	39	0	20	1.53
643539--643582	23	2.0	22	86	4	61	38	38	0	22	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
648003--648050	23	2.1	23	88	0	69	35	37	0	27	1.57
649550--649589	8	5.0	8	85	8	55	85	10	5	0	0.75
649552--649602	22	2.2	24	86	6	70	82	9	7	0	0.85
649554--649593	20	1.9	20	90	10	62	85	7	7	0	0.76
649551--649609	28	2.0	28	83	6	73	79	11	8	0	0.93
655405--655447	16	2.8	16	86	10	54	55	6	4	32	1.47
656060--656093	16	2.1	16	94	0	59	47	5	2	44	1.42
657937--657976	3	13.7	3	86	5	55	60	2	0	37	1.11
661132--661181	21	2.4	21	86	0	73	24	20	18	38	1.93
667996--668157	66	2.4	65	86	4	207	38	10	17	33	1.84

Tables:   1   2   3   4   5   6   7   8   9