genome.fa.s9625.2.7.7.80.10.50.1000.3.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  3  of  25  ( 2922 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)
515548--515610	25	2.5	25	92	7	101	42	0	38	19	1.51
515590--515629	19	2.0	20	85	9	55	37	0	37	25	1.56
532863--533178	138	2.3	138	90	0	488	43	15	10	30	1.80
537880--538063	34	5.5	34	76	5	124	28	27	14	29	1.95
545301--545359	21	2.8	21	97	0	109	52	20	6	20	1.69
555152--555199	20	2.4	20	96	0	87	45	25	4	25	1.71
563092--563266	56	3.1	55	79	8	194	38	12	9	40	1.74
563866--563911	25	1.9	23	86	8	65	41	15	23	19	1.89
566232--566343	55	2.0	56	89	1	172	37	15	11	35	1.83
575410--575462	27	2.1	26	86	10	74	69	0	0	30	0.88
575841--575925	33	2.6	34	86	5	95	29	11	16	42	1.84
575856--575925	33	2.1	33	94	0	122	25	10	20	44	1.82
575973--576041	25	2.7	24	76	20	68	69	1	0	28	0.97
576383--576903	169	3.1	163	80	5	472	24	19	24	31	1.98
576385--576908	84	6.3	85	76	6	441	24	19	25	31	1.98
577026--577665	110	5.9	110	86	1	858	25	18	22	34	1.96
579494--579531	18	2.1	18	90	0	58	21	10	36	31	1.87
583491--583526	18	2.0	18	100	0	72	22	33	16	27	1.95
586402--586443	21	2.0	21	85	0	57	35	19	7	38	1.79
586850--586900	25	2.0	25	92	0	84	25	27	21	25	1.99
587811--587836	11	2.4	11	100	0	52	38	7	38	15	1.76
587897--587932	18	2.0	18	89	10	56	77	0	19	2	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589249--589280	16	2.0	16	100	0	64	25	18	12	43	1.85
596773--597208	56	7.9	56	84	2	551	36	17	11	34	1.86
596773--597208	111	3.9	112	85	1	576	36	17	11	34	1.86
599029--599069	22	1.9	21	90	5	64	24	2	36	36	1.69
603074--603132	31	1.9	31	96	0	109	32	35	0	32	1.58
603725--603837	35	3.2	35	87	1	163	34	3	35	26	1.74
603779--603836	13	4.7	13	68	20	52	32	1	37	27	1.67
608591--608631	19	2.2	19	86	8	57	9	17	4	68	1.35
608664--608703	20	1.9	21	90	10	64	0	7	7	85	0.76
609092--609130	13	2.9	13	85	7	51	33	0	43	23	1.54
609469--609511	20	2.2	20	87	4	61	46	4	16	32	1.67
619777--619954	90	2.0	90	93	0	302	36	11	7	44	1.69
624093--624135	17	2.5	17	76	0	50	27	11	11	48	1.74
624146--624198	17	3.1	17	86	2	70	33	15	9	41	1.79
633720--633789	22	3.3	21	75	16	72	45	4	2	47	1.37
642635--642665	5	6.4	5	92	7	55	0	22	0	77	0.77
642635--642662	14	2.0	14	100	0	56	0	21	0	78	0.75
646911--646977	32	2.1	32	94	0	116	22	19	28	29	1.98
646911--646996	32	2.7	32	85	7	86	24	18	26	30	1.98
647801--647849	2	25.0	2	95	4	91	51	0	0	48	1.00
652372--652407	2	18.5	2	88	5	56	52	0	0	47	1.00
654500--654537	6	6.3	6	85	11	51	78	18	0	2	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657090--657120	16	1.9	16	100	0	62	22	38	6	32	1.80
662813--662858	15	2.9	15	81	18	58	8	30	0	60	1.26
669960--670081	56	2.2	57	82	10	144	50	5	17	26	1.68
680815--680858	22	2.0	23	90	4	72	11	15	15	56	1.66
683158--683206	2	24.5	2	100	0	98	48	0	0	51	1.00
686742--686766	2	12.5	2	100	0	50	48	0	0	52	1.00
691166--691208	22	1.9	22	85	4	59	4	16	6	72	1.24
693051--693092	22	2.0	21	85	4	57	26	2	33	38	1.69
694348--694391	2	22.5	2	84	13	56	45	0	2	52	1.13
694747--694785	16	2.4	16	95	0	69	15	20	23	41	1.90
702998--703055	25	2.3	24	82	8	71	65	15	8	10	1.46
706891--706967	25	3.3	24	78	10	70	70	11	10	7	1.35
706901--706947	25	1.9	25	91	4	78	68	17	8	6	1.37
712454--712508	24	2.3	24	83	0	74	10	12	14	61	1.56
712565--712590	12	2.2	12	100	0	52	7	15	15	61	1.55
714596--714666	13	5.4	13	72	12	56	4	15	2	77	1.04
714598--714668	17	3.9	18	72	10	65	4	15	4	76	1.10
716293--716341	2	24.5	2	100	0	98	48	0	0	51	1.00
719242--719300	5	12.0	5	79	13	61	0	16	1	81	0.78
719230--719295	7	9.3	7	76	15	57	1	15	3	80	0.91
719242--719301	19	3.3	18	82	13	79	0	16	1	81	0.77
723751--723848	50	2.0	50	95	0	178	41	12	12	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
728961--729060	33	3.0	33	92	0	164	31	25	18	26	1.97
728975--729029	17	3.3	17	70	14	60	30	25	18	25	1.98
735369--735468	33	3.0	33	86	0	146	33	25	16	26	1.96
738629--738686	27	2.1	27	84	6	73	12	12	1	74	1.16
738995--739036	22	2.0	21	90	4	66	26	2	33	38	1.69
741371--741416	23	2.0	22	87	4	65	19	2	43	34	1.63
747768--747799	16	2.0	16	100	0	64	43	6	18	31	1.75
751104--751154	19	2.6	20	90	3	77	43	5	13	37	1.69
755415--755477	25	2.4	28	76	17	71	6	19	12	61	1.51
767207--767246	20	1.9	22	85	10	57	40	12	30	17	1.86
778626--778675	24	2.1	24	85	7	66	26	2	12	60	1.43
779150--779183	17	2.1	16	88	5	50	14	8	0	76	1.01
788863--788912	24	2.1	24	85	7	66	26	2	12	60	1.43
789387--789420	17	2.1	16	88	5	50	14	8	0	76	1.01
797866--797916	19	2.6	20	87	3	68	45	5	15	33	1.71
810445--810474	10	3.0	10	95	0	51	30	6	30	33	1.83
811529--811588	24	2.6	23	76	7	68	63	11	16	8	1.51
816534--816572	13	3.0	13	85	10	53	0	23	0	76	0.78
824534--824603	26	2.7	26	75	16	74	21	15	0	62	1.32
824534--824590	27	2.2	26	84	9	71	24	15	0	59	1.36
843809--843861	21	2.6	21	85	11	74	5	15	1	77	1.04
845590--845646	27	2.2	26	84	9	71	26	14	0	59	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
853962--854001	20	1.9	20	85	10	53	32	7	32	27	1.85
854212--854247	15	2.4	15	90	0	54	50	5	0	44	1.25
858249--858288	20	1.9	20	85	10	53	32	7	32	27	1.85
858499--858534	15	2.4	15	90	0	54	50	5	0	44	1.25
860349--860391	16	2.8	16	96	3	79	27	23	25	23	2.00
861126--861165	19	2.0	20	90	4	64	20	15	0	65	1.28
869314--869367	23	2.3	23	78	6	65	7	11	11	70	1.34
871009--871049	22	1.9	22	85	14	59	31	4	12	51	1.60
871009--871049	21	1.9	21	85	14	57	31	4	12	51	1.60
878395--878456	8	8.0	8	77	13	67	0	6	11	82	0.84
878384--878440	16	3.4	17	76	18	57	0	10	12	77	1.00
878398--878438	14	2.8	14	92	7	64	0	9	9	80	0.91
878384--878420	20	1.9	20	88	5	58	0	10	10	78	0.97
878395--878445	22	2.3	20	83	12	57	0	7	9	82	0.85
878396--878454	15	3.9	15	82	10	75	0	6	10	83	0.82
895139--895178	20	1.9	20	85	10	53	32	7	32	27	1.85
896510--896539	13	2.4	13	94	5	53	26	30	0	43	1.55
900686--900725	20	1.9	20	85	10	53	32	7	32	27	1.85
908697--908728	2	16.5	2	93	6	57	50	0	0	50	1.00
910043--910082	19	2.0	20	90	4	64	20	15	0	65	1.28
910039--910085	19	2.6	18	83	12	60	19	14	0	65	1.26
913462--913492	9	3.4	9	95	0	53	3	9	16	70	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
915157--915194	2	19.0	2	94	0	67	52	0	0	47	1.00
916896--916945	23	2.2	22	86	10	66	26	8	0	66	1.19
917212--917260	14	3.8	13	75	20	50	77	2	20	0	0.87
923369--923408	20	1.9	20	85	10	53	32	7	32	27	1.85
923619--923654	15	2.4	15	90	0	54	50	5	0	44	1.25
927644--927683	20	1.9	20	85	10	53	32	7	32	27	1.85
927894--927929	15	2.4	15	90	0	54	50	5	0	44	1.25
928360--928409	23	2.2	22	86	10	66	26	8	0	66	1.19
934312--934356	19	2.4	19	100	0	90	46	4	24	24	1.71
938528--938570	23	1.9	21	81	13	50	32	18	13	34	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25