genome.fa.s6093.2.7.7.80.10.50.1000.2.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: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3172561

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  2  of  13  ( 1555 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)
417374--417843	46	10.4	46	86	3	632	20	23	11	44	1.83
422532--423016	46	10.5	46	90	0	745	21	21	12	44	1.85
422532--423087	72	8.0	72	68	19	264	21	21	13	44	1.86
423004--423169	46	3.6	46	80	4	181	18	21	13	45	1.84
423045--423121	26	3.1	24	73	21	70	20	16	10	51	1.73
428329--428902	46	12.6	46	83	6	715	20	21	13	44	1.85
428329--428911	20	25.5	26	69	20	244	20	21	13	44	1.85
428862--428922	26	2.3	26	80	5	70	22	13	11	52	1.72
434556--434598	19	2.5	17	85	11	52	37	0	0	62	0.95
434556--434602	20	2.4	19	80	13	51	36	0	0	63	0.94
438722--438802	21	3.8	22	80	7	78	23	34	24	17	1.96
442222--442274	24	2.2	24	86	0	70	22	16	24	35	1.95
443090--443145	24	2.3	24	100	0	112	16	21	30	32	1.95
444644--444678	14	2.5	14	85	0	52	82	2	2	11	0.88
445212--445250	17	2.3	17	86	0	60	28	12	0	58	1.34
445234--445287	27	2.0	27	85	7	74	22	12	5	59	1.54
446904--446950	13	3.5	13	81	16	60	42	8	0	48	1.33
447534--447591	10	5.7	10	76	17	57	44	6	0	48	1.29
447544--447590	2	24.0	2	85	12	62	48	4	0	46	1.21
449390--449460	2	35.5	2	100	0	142	49	0	0	50	1.00
451602--451660	21	2.8	21	97	0	109	30	18	27	23	1.98
461630--461663	18	2.0	18	88	11	54	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467338--467435	49	2.0	49	92	4	162	21	24	9	44	1.81
474205--474244	21	2.0	20	85	5	53	32	15	12	40	1.84
475050--475100	20	2.5	20	90	0	75	29	29	21	19	1.98
479041--479095	13	4.2	13	80	11	67	69	1	0	29	0.99
479038--479100	28	2.2	27	91	8	99	71	3	0	25	1.01
479381--479485	51	2.1	51	85	0	138	20	32	27	20	1.97
479894--479933	20	2.0	20	95	0	71	32	30	15	22	1.94
483241--483522	131	2.1	132	81	10	319	29	19	19	31	1.97
484156--484191	19	1.9	19	94	5	65	5	16	0	77	0.94
484557--484635	42	1.9	42	89	2	124	32	21	21	24	1.98
484557--484657	42	2.4	41	80	6	123	32	19	22	24	1.97
484218--485041	261	3.2	257	87	4	1168	34	16	15	33	1.91
488002--488216	27	8.4	27	61	26	85	21	20	13	44	1.85
488024--488062	20	2.0	20	89	0	60	15	28	15	41	1.87
488009--488099	47	1.9	47	93	0	155	20	20	13	45	1.85
488059--488134	35	2.2	35	92	0	125	25	18	11	44	1.83
488012--488181	82	2.1	82	93	2	288	22	20	13	44	1.86
488094--488244	47	3.2	47	90	0	239	22	19	12	45	1.84
494838--494960	47	2.6	46	84	5	165	22	17	13	47	1.82
495338--495585	95	2.6	95	92	1	408	25	21	12	40	1.88
495431--495579	41	3.3	41	71	21	136	26	20	12	40	1.88
499436--499523	46	1.9	46	90	0	140	21	18	12	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499745--500190	54	8.3	54	84	1	511	34	18	16	30	1.94
500512--500550	20	2.0	20	84	0	51	35	28	7	28	1.85
505361--505448	46	1.9	46	90	0	140	23	19	11	45	1.83
505666--505786	54	2.2	54	82	2	145	34	20	15	28	1.94
506149--506186	16	2.4	16	100	0	76	42	5	0	52	1.24
507267--507491	54	4.2	54	88	4	321	32	17	17	33	1.93
507274--507487	109	2.0	108	87	4	315	32	17	16	33	1.93
507936--508031	21	4.6	21	98	0	183	25	22	13	38	1.91
517501--517537	2	18.5	2	100	0	74	48	0	0	51	1.00
518987--519352	131	2.8	131	83	2	450	39	15	11	33	1.84
521443--521471	14	2.1	14	100	0	58	72	0	0	27	0.85
521473--521501	12	2.4	12	100	0	58	58	0	0	41	0.98
521674--522326	133	4.9	134	82	3	706	30	15	21	32	1.94
521674--522326	267	2.4	265	82	3	765	30	15	21	32	1.94
523617--523756	17	8.0	17	77	17	112	4	18	0	77	0.93
523654--523759	13	8.5	13	69	24	59	6	16	0	76	0.99
523620--523753	6	21.8	6	73	19	75	4	17	0	77	0.93
530164--530206	14	2.9	15	81	18	54	13	16	0	69	1.19
530217--530436	45	4.8	45	86	2	253	24	20	8	46	1.77
530802--530967	59	2.8	59	92	0	271	37	18	10	33	1.85
533578--533657	22	3.6	22	89	0	124	27	17	23	31	1.97
534984--535021	19	2.0	20	94	5	69	31	13	7	47	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541676--541781	55	1.9	55	84	3	142	33	24	15	27	1.95
541762--541810	19	2.6	19	84	9	57	24	30	18	26	1.98
547610--547690	24	3.6	22	77	14	85	23	24	22	29	1.99
550335--550496	64	2.5	64	84	4	220	29	27	16	27	1.97
551247--551606	131	2.7	131	88	0	522	41	16	10	31	1.83
554906--554966	23	2.7	23	92	0	95	45	4	13	36	1.64
555194--555234	21	2.0	21	95	0	73	46	14	12	26	1.80
555475--555519	20	2.3	18	79	20	54	15	20	8	55	1.66
555378--555927	181	3.0	181	87	3	756	29	15	12	42	1.84
561788--561866	39	2.0	39	80	4	88	35	1	2	60	1.18
563929--563953	3	8.3	3	100	0	50	36	0	32	32	1.58
567371--567468	23	4.4	22	82	6	81	30	26	18	24	1.98
567382--567468	23	3.8	23	85	0	111	31	25	20	22	1.98
573166--573281	59	2.0	59	81	6	137	43	7	19	28	1.79
573397--573487	32	2.9	32	76	11	98	34	18	17	29	1.94
573395--573522	31	4.1	31	73	6	105	28	18	20	32	1.96
579684--579747	21	3.0	21	90	4	101	23	39	26	10	1.88
579684--579747	22	3.0	22	93	2	103	23	39	26	10	1.88
580096--580165	34	2.1	32	89	5	104	31	12	31	24	1.93
581016--581063	19	2.5	20	82	3	62	52	6	12	29	1.63
582512--582569	20	2.8	19	82	7	62	20	34	25	18	1.96
582918--582987	34	2.1	32	89	5	104	31	15	31	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583048--583377	166	2.0	166	95	0	597	24	25	19	30	1.98
583571--583599	2	14.5	2	100	0	58	48	0	0	51	1.00
584051--584092	20	2.2	19	87	8	59	45	9	21	23	1.81
585501--585618	47	2.5	48	87	5	161	44	11	12	32	1.78
585700--585730	11	2.8	11	100	0	62	9	0	45	45	1.36
589187--589227	21	2.0	21	90	9	66	46	0	0	53	1.00
589236--589280	21	2.1	21	92	8	74	55	13	11	20	1.68
589390--589428	21	1.9	20	89	5	60	23	2	5	69	1.21
592900--592937	3	12.3	3	84	15	51	63	0	0	36	0.95
593111--593493	131	2.9	131	80	1	424	24	15	32	26	1.95
593469--593513	20	2.2	20	96	0	81	26	13	31	28	1.94
593615--593802	30	5.8	29	68	22	108	36	13	20	28	1.91
593519--593887	67	5.6	66	87	5	478	40	14	20	25	1.90
593664--593839	37	5.1	37	66	25	107	40	15	19	24	1.90
593864--593985	37	3.3	37	82	5	149	40	12	18	29	1.87
593854--594015	74	2.2	72	81	8	200	40	12	17	29	1.87
599090--599244	65	2.4	64	82	5	179	29	21	17	31	1.96
599305--599359	21	2.6	21	94	0	101	25	21	20	32	1.97
605087--605166	23	3.6	23	75	10	85	27	22	22	27	1.99
608247--608303	27	2.1	27	83	0	69	24	3	14	57	1.52
608532--608567	12	3.0	12	100	0	72	58	0	8	33	1.28
608942--609066	65	1.9	65	91	6	209	29	22	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610253--610461	107	1.9	110	81	9	259	51	16	11	20	1.76
612093--612127	6	5.8	6	100	0	70	31	34	17	17	1.93
624146--624194	24	2.1	24	85	11	66	57	0	2	40	1.10
628954--629103	81	1.8	82	81	1	185	34	19	11	34	1.87
628968--629103	41	3.3	41	82	1	157	32	19	11	36	1.88
629572--629621	23	2.2	23	82	7	57	16	2	38	44	1.59
633203--633522	43	7.5	42	80	3	320	25	23	17	33	1.96
633203--633522	85	3.8	83	84	3	370	25	23	17	33	1.96
633997--634044	12	4.2	12	81	10	55	52	0	2	45	1.12
634013--634099	2	45.0	2	72	19	60	41	5	1	51	1.33

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13