genome.fa.s8032.2.7.7.80.10.50.1000.2.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: VEPZ01008032.1 Hibiscus syriacus cultivar Beakdansim tig00110514_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1200719

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 598 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)
330461--330523	20	3.2	20	69	13	58	30	22	25	22	1.99
338907--338944	20	1.9	20	84	10	51	34	0	7	57	1.28
341492--341549	28	2.1	28	87	6	84	62	1	5	31	1.27
343904--343945	3	13.7	3	85	5	57	69	0	2	28	1.01
344236--344285	23	2.2	23	88	0	73	50	0	14	36	1.43
347742--347798	20	2.8	19	77	17	62	33	21	22	22	1.97
347736--347821	21	4.1	21	75	11	88	32	23	22	22	1.98
348556--348718	21	7.6	21	78	13	97	32	23	21	22	1.98
348597--348640	14	3.2	14	93	6	81	36	20	20	22	1.95
348623--348677	20	2.8	20	100	0	110	41	16	20	21	1.90
348727--348820	42	2.2	42	96	0	170	20	21	27	30	1.98
348727--348814	21	4.2	21	92	0	149	21	21	27	29	1.99
357274--357324	14	3.7	13	77	12	57	25	17	27	29	1.98
358767--358807	16	2.6	16	100	0	82	34	12	0	53	1.38
358094--360131	798	2.5	792	82	6	2379	37	16	9	36	1.82
360706--360913	105	2.0	104	81	6	242	39	12	12	35	1.80
361052--361097	24	2.0	24	82	4	58	58	10	4	26	1.50
362886--362910	12	2.1	12	100	0	50	16	20	24	40	1.91
367086--367456	128	2.9	128	81	3	422	43	16	9	31	1.79
369427--369463	3	12.0	3	94	5	65	64	0	2	32	1.07
369578--369617	20	2.0	20	85	9	55	17	2	20	60	1.48
377003--377099	32	3.0	32	77	5	106	38	30	10	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377160--377193	16	2.1	16	94	0	59	35	23	11	29	1.90
379113--379154	22	1.9	23	90	9	70	19	4	4	71	1.22
383343--383384	20	2.0	21	86	9	59	33	2	35	28	1.70
388746--388795	12	4.1	12	74	23	50	66	10	10	14	1.46
389027--389068	20	2.0	21	86	9	59	33	2	35	28	1.70
390207--390282	36	2.1	37	90	7	120	39	15	15	28	1.89
390207--390307	37	2.8	36	83	6	114	38	13	15	31	1.87
390786--390835	25	2.1	25	82	14	61	38	4	0	58	1.17
394348--394396	23	2.2	21	85	7	62	79	6	10	4	1.03
394363--394417	20	2.7	20	85	5	65	76	7	12	3	1.12
395025--395075	22	2.3	22	93	0	84	35	25	13	25	1.93
395937--396040	39	2.8	37	85	8	131	24	23	12	40	1.89
395934--396244	36	8.9	36	68	19	160	27	20	12	39	1.88
396056--396147	37	2.5	37	87	3	123	27	18	11	42	1.85
395952--396412	102	4.5	101	88	3	611	29	20	12	37	1.89
396158--396244	37	2.4	37	86	5	115	25	21	13	39	1.90
396259--396345	36	2.4	36	86	0	111	26	21	12	39	1.89
396287--396424	67	2.1	67	91	0	222	31	20	12	35	1.90
396287--396445	67	2.4	67	88	2	221	33	20	10	35	1.87
397026--397435	106	3.9	104	81	7	431	32	24	19	23	1.97
397026--397441	206	2.0	211	81	5	488	33	24	19	22	1.97
397840--397915	36	2.1	37	87	7	111	42	14	14	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397840--397940	37	2.8	36	81	6	105	40	12	14	31	1.84
398626--398659	16	2.1	16	88	0	50	32	5	0	61	1.20
404291--404329	20	2.0	19	85	5	51	25	23	20	30	1.98
404375--404432	23	2.6	23	75	2	64	31	17	22	29	1.96
408654--408700	3	16.0	3	85	12	62	63	0	2	34	1.06
408651--408697	10	4.1	11	80	17	51	61	0	4	34	1.15
408649--408697	16	2.9	16	82	11	53	63	0	4	32	1.13
408654--408703	19	2.6	20	84	15	70	62	0	2	36	1.07
408654--408700	22	2.1	22	88	7	69	63	0	2	34	1.06
408654--408703	13	3.9	13	89	10	77	62	0	2	36	1.07
409559--409618	28	2.1	28	85	11	79	53	5	13	28	1.60
416345--416407	11	5.9	11	71	14	60	57	1	0	41	1.08
416694--416748	25	2.2	26	83	9	69	43	5	3	47	1.44
416890--416919	7	4.3	7	91	0	51	46	36	0	16	1.47
416894--416937	14	3.1	14	81	12	54	45	29	0	25	1.54
416890--416934	21	2.1	21	87	0	63	48	31	0	20	1.49
418320--418364	12	3.8	12	79	5	56	37	15	20	26	1.92
418316--418372	23	2.5	23	91	0	87	35	17	21	26	1.95
418316--418351	11	3.2	11	84	7	54	30	19	22	27	1.98
422919--423002	37	2.3	37	77	8	91	46	10	11	30	1.75
428489--428530	20	2.0	21	90	4	68	42	33	9	14	1.78
429666--429711	12	3.8	12	88	0	65	56	4	28	10	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431840--431879	20	2.0	20	95	0	71	42	32	10	15	1.79
435180--435219	20	2.0	21	95	5	73	32	22	20	25	1.98
435323--435361	20	1.9	21	94	5	71	33	35	15	15	1.89
437099--437146	20	2.5	19	83	10	53	47	6	10	35	1.63
438638--438677	20	2.0	21	95	5	73	32	22	20	25	1.98
438781--438819	20	1.9	21	94	5	71	33	35	15	15	1.89
441010--441075	21	3.0	21	69	16	60	30	13	12	43	1.80
441643--441690	17	2.8	17	87	6	71	66	0	4	29	1.10
441831--441872	20	2.2	19	86	4	57	64	0	0	35	0.94
441854--441895	18	2.4	17	84	11	50	57	2	0	40	1.12
442512--442539	2	14.0	2	100	0	56	50	0	0	50	1.00
449779--449817	20	1.9	20	84	5	51	33	7	2	56	1.41
451813--452013	23	8.7	23	93	0	312	22	20	24	31	1.98
457000--457475	54	8.8	54	93	0	774	32	18	17	31	1.94
457294--457440	26	5.5	27	62	24	69	32	18	15	33	1.92
462912--462948	10	3.7	10	100	0	74	18	10	0	70	1.16
470883--470931	20	2.4	21	80	12	59	32	10	30	26	1.89
470958--470996	19	2.1	19	85	0	51	30	17	23	28	1.97
471350--471755	215	1.9	217	91	1	663	32	15	18	33	1.92
471350--471787	54	8.1	54	86	2	567	32	15	18	33	1.92
477395--477420	6	4.3	6	100	0	52	30	0	53	15	1.42
479748--479808	29	2.1	30	87	3	88	42	4	16	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481713--481737	12	2.1	12	100	0	50	32	16	28	24	1.96
482981--483077	23	4.3	23	79	7	101	26	15	25	31	1.96
483040--483098	21	2.7	22	82	12	59	25	13	28	32	1.94
488330--488395	28	2.5	26	78	7	78	54	3	0	42	1.15
489467--489521	28	2.0	28	89	7	85	36	14	16	32	1.89
492456--492545	29	3.1	29	83	0	108	21	20	11	47	1.80
492514--492926	81	5.1	80	87	1	529	28	22	12	36	1.91
496654--496686	2	16.5	2	100	0	66	48	0	0	51	1.00
496821--496910	29	3.1	28	80	12	85	25	17	10	46	1.79
496879--497289	81	5.1	81	80	7	465	31	20	10	36	1.87
497926--498044	54	2.2	54	93	0	202	29	16	14	39	1.88
506067--506125	26	2.2	26	91	8	93	62	1	0	35	1.05
506076--506129	18	3.1	18	75	20	53	64	1	0	33	1.04
506109--506133	13	1.9	13	100	0	50	68	0	0	32	0.90
506139--506197	25	2.3	26	82	5	66	59	3	1	35	1.24
513409--513819	121	3.5	117	77	11	426	28	17	14	38	1.90
513958--514401	112	4.0	112	93	1	712	26	20	15	36	1.93
513958--514401	225	2.0	224	90	2	712	26	20	15	36	1.93
516306--516351	24	1.9	24	82	8	58	52	0	2	45	1.13
519605--519639	13	2.7	13	95	0	61	34	45	11	8	1.71
520714--521049	168	2.0	168	100	0	672	34	15	24	25	1.95
521444--521486	21	2.0	21	90	0	68	27	20	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521509--521573	21	3.1	21	95	0	112	23	24	24	27	2.00
525039--525087	2	24.5	2	100	0	98	48	0	0	51	1.00
525569--525620	17	3.0	17	80	5	59	9	13	11	65	1.47
525648--525696	17	2.9	17	81	0	62	26	8	6	59	1.50
527264--527326	30	2.1	31	84	3	83	30	17	9	42	1.81
535471--535673	66	3.1	66	86	0	298	35	26	11	26	1.91
535775--535809	15	2.2	16	90	5	54	42	8	0	48	1.33
541711--541741	14	2.2	14	94	0	53	32	16	32	19	1.94
541740--541778	15	2.7	15	84	4	53	23	17	33	25	1.96
548235--548292	13	4.2	13	70	12	53	34	20	17	27	1.95

Tables:   1   2   3   4   5