genome.fa.s8442.2.7.7.80.10.50.1000.3.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: VEPZ01008442.1 Hibiscus syriacus cultivar Beakdansim tig00111244_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  816021

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 531 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)
346441--346797	112	3.2	112	91	1	565	46	14	14	24	1.82
346768--346817	20	2.5	20	90	0	73	46	20	16	18	1.85
346655--346933	132	2.1	131	95	2	497	45	14	15	24	1.83
346843--347823	182	5.4	182	95	0	1703	42	12	15	29	1.84
346843--348006	364	3.3	363	91	2	1866	42	12	15	29	1.84
347648--347980	162	2.1	162	93	1	560	42	12	16	29	1.84
348390--348437	23	2.1	23	92	0	78	39	16	6	37	1.74
350530--350598	32	2.2	32	89	7	106	52	0	5	42	1.25
350628--350714	29	2.9	29	77	6	77	50	0	6	42	1.29
352418--352461	22	2.0	22	100	0	88	50	0	9	40	1.34
355494--355620	66	1.9	67	95	4	231	40	12	18	28	1.87
356147--356182	15	2.4	15	95	0	63	13	8	52	25	1.68
356263--356298	15	2.4	15	95	0	63	13	8	52	25	1.68
356118--356356	116	2.1	116	97	1	444	30	9	30	29	1.88
357438--357540	53	1.9	53	86	7	147	30	24	6	38	1.81
358210--358445	130	1.8	130	83	4	314	41	15	8	34	1.78
359286--359516	106	2.2	106	81	6	265	47	22	13	16	1.81
360307--360362	6	9.3	6	82	7	60	76	0	0	23	0.78
360313--360358	24	1.9	24	90	0	74	76	0	0	23	0.79
360310--360373	16	4.2	15	79	16	60	70	0	0	29	0.88
360594--360791	86	2.3	87	83	1	254	31	19	18	30	1.96
360696--360990	138	2.1	138	83	6	391	31	16	21	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
362107--362192	45	2.0	43	84	9	111	20	27	13	37	1.91
362190--362316	27	5.0	24	76	16	96	4	7	4	82	0.93
362190--362258	12	5.8	12	91	8	106	0	5	8	85	0.74
362256--362313	9	6.3	9	80	11	73	8	10	0	81	0.89
362190--362306	1	117.0	1	69	0	63	3	7	5	83	0.89
362236--362323	18	4.7	19	80	14	87	6	11	1	80	0.94
362256--362325	17	4.0	17	77	15	54	10	12	0	77	1.00
369424--369463	21	1.9	21	84	0	53	35	0	5	60	1.19
373275--373668	130	3.0	130	90	0	590	40	16	9	34	1.80
379588--379874	153	1.9	153	82	7	368	47	6	6	39	1.57
379861--379925	26	2.6	26	74	13	66	63	1	0	35	1.04
382301--382342	3	14.0	3	84	0	57	64	0	0	35	0.94
382526--383012	39	12.5	39	84	2	566	22	22	10	45	1.82
382645--382709	20	3.3	20	62	12	53	20	26	6	47	1.73
382526--383012	118	4.2	117	84	1	584	22	22	10	45	1.82
382527--383018	157	3.2	154	84	3	635	21	22	9	45	1.81
383067--383317	45	5.5	45	86	4	315	29	19	21	29	1.98
387370--387504	72	1.9	72	92	3	227	34	17	21	27	1.95
389901--389937	12	3.1	12	100	0	74	51	8	16	24	1.71
389958--389988	8	3.9	8	91	0	53	54	9	22	12	1.67
390068--390152	43	2.0	43	90	6	138	37	21	9	31	1.85
392400--392439	2	20.5	2	94	5	73	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393071--393474	202	2.0	198	95	4	722	11	19	25	44	1.84
393745--393788	17	2.6	17	81	0	61	9	22	31	36	1.86
395171--395204	2	17.0	2	100	0	68	50	0	0	50	1.00
395261--395310	19	2.7	18	80	14	57	28	4	4	64	1.30
396412--396743	119	2.8	118	83	3	416	43	19	12	25	1.86
403314--403346	15	2.1	16	88	5	50	60	18	0	21	1.36
403533--403862	118	2.8	118	88	0	473	40	21	12	24	1.88
406801--406858	29	1.9	31	86	6	84	36	13	3	46	1.61
408063--408107	22	2.0	22	95	0	81	24	26	17	31	1.97
412125--412164	18	2.2	18	100	0	80	62	0	5	32	1.17
413189--413214	6	4.3	6	100	0	52	0	19	0	80	0.71
415860--415930	13	5.7	12	78	18	65	78	1	16	2	0.94
415860--415920	27	2.3	26	86	8	79	80	0	18	1	0.80
415881--415931	23	2.3	22	83	12	68	80	1	15	1	0.89
417421--418083	45	15.0	45	83	6	775	24	16	20	38	1.93
417605--417673	34	2.0	34	97	0	129	24	17	24	33	1.96
417486--418083	179	3.4	173	84	5	715	23	16	21	37	1.93
419152--419353	106	1.9	106	87	2	298	31	17	19	30	1.95
423491--423532	20	2.1	20	86	8	59	47	0	0	52	1.00
423770--423819	19	2.6	19	87	0	73	38	6	14	42	1.70
424194--424220	4	6.8	4	100	0	54	22	0	0	77	0.76
424300--424353	26	2.1	26	100	0	108	25	7	12	53	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426414--426456	21	2.0	22	86	4	61	34	2	23	39	1.67
427016--427061	23	2.0	22	84	12	58	65	2	10	21	1.35
427265--427310	19	2.4	18	89	7	65	69	4	0	26	1.07
428854--428966	34	3.4	34	89	6	160	32	10	18	38	1.85
428952--429128	67	2.6	67	95	0	309	38	10	19	31	1.85
429087--429364	36	7.8	36	80	10	306	41	15	19	23	1.89
429245--429307	21	3.3	21	62	25	57	42	12	19	25	1.86
429020--429349	138	2.4	140	89	3	488	42	13	18	25	1.87
429429--429499	36	2.0	36	91	0	115	40	14	19	25	1.89
430228--430262	13	2.5	15	86	13	56	28	28	8	34	1.87
430864--431045	95	1.9	95	88	0	274	31	18	17	32	1.94
434798--434847	13	3.8	14	77	17	54	74	6	2	18	1.12
434990--435105	10	11.7	10	69	22	52	59	4	3	32	1.34
435060--435102	16	3.0	14	78	15	52	58	9	0	32	1.30
436762--437128	66	5.6	64	77	13	281	37	10	19	32	1.86
436874--436988	31	3.5	32	84	7	142	33	11	17	38	1.85
436971--437174	63	3.3	59	81	12	223	39	10	17	32	1.84
437189--437259	36	2.0	36	91	0	115	39	12	21	26	1.89
437327--437426	36	2.8	36	73	3	94	42	12	15	31	1.83
437267--437426	72	2.1	76	83	10	197	40	13	16	28	1.87
442770--442821	18	2.7	18	80	11	59	69	0	9	21	1.17
442786--442828	18	2.3	19	84	4	52	67	0	9	23	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442912--442948	2	18.5	2	100	0	74	51	0	0	48	1.00
444020--444050	14	2.2	14	100	0	62	38	6	19	35	1.77
444345--444430	4	21.2	4	80	15	97	1	75	0	23	0.87
447555--447634	2	40.0	2	100	0	160	50	0	0	50	1.00
452993--453059	34	1.9	34	82	14	84	20	11	19	47	1.81
454628--454820	23	8.4	23	100	0	386	35	21	21	21	1.96
454789--454909	54	2.2	55	86	2	165	35	24	15	23	1.94
455120--455394	138	2.1	130	89	5	415	39	17	12	31	1.86
456626--456671	22	2.0	23	87	4	67	21	8	6	63	1.46
459299--459334	18	2.1	18	89	5	56	58	13	16	11	1.63
473553--473591	20	2.0	20	89	0	60	33	23	10	33	1.88
488495--488551	29	1.9	30	86	10	82	50	3	1	43	1.29
488655--488713	30	2.0	30	83	6	75	20	13	1	64	1.37
491216--491252	20	1.9	19	89	10	58	48	10	21	18	1.78
491399--491467	36	1.9	36	88	5	104	49	5	0	44	1.26
494182--494227	18	2.6	18	100	0	92	41	15	39	4	1.67
496895--496948	26	2.1	26	100	0	108	46	11	3	38	1.57
497039--497091	9	5.6	9	80	12	61	54	0	1	43	1.11
497044--497086	10	4.2	11	77	17	56	53	0	0	46	1.00
497042--497082	19	2.2	19	91	8	66	56	0	0	43	0.99
497039--497091	20	2.7	21	85	11	76	54	0	1	43	1.11
497103--497127	9	2.8	9	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499009--499091	30	2.7	31	90	3	132	16	14	6	62	1.50
501458--501510	23	2.3	23	87	6	72	30	28	16	24	1.97
501504--501553	21	2.4	21	82	0	55	40	28	10	22	1.86
502109--502232	53	2.3	54	87	4	171	28	22	20	29	1.98
502283--502373	3	30.7	3	86	2	130	35	3	0	61	1.12
515559--515603	16	2.8	16	83	10	56	28	8	6	55	1.56
516441--516584	50	2.9	50	97	0	270	22	13	23	40	1.90
516541--516869	83	4.0	83	89	3	504	28	13	21	36	1.91
516359--516741	133	2.9	132	68	16	304	26	13	22	38	1.90
516541--516869	165	2.0	164	90	3	518	28	13	21	36	1.91

Tables:   1   2   3   4   5