genome.fa.s8727.2.7.7.80.10.50.1000.3.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: VEPZ01008727.1 Hibiscus syriacus cultivar Beakdansim tig00111794_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1388410

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 846 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)
390353--390514	87	1.9	87	92	0	270	30	15	11	41	1.83
390779--391733	182	5.3	182	92	1	1447	43	12	15	28	1.83
390779--391733	362	2.6	362	89	3	1445	43	12	15	28	1.83
392311--392373	19	3.3	19	65	12	56	50	1	14	33	1.52
394421--394465	23	2.0	23	95	0	81	37	20	8	33	1.83
394337--394498	87	1.9	87	93	0	279	30	15	12	41	1.84
397266--397297	2	16.0	2	100	0	64	50	0	0	50	1.00
404767--404795	10	2.7	11	89	10	51	34	0	0	65	0.93
405098--405204	31	3.5	30	75	5	90	41	7	0	51	1.30
405218--405295	30	2.6	30	87	4	113	52	0	6	41	1.27
405249--405317	24	2.8	23	79	12	75	52	0	8	39	1.33
405250--405440	30	6.6	29	74	11	117	51	0	10	37	1.37
405563--405630	29	2.3	29	82	9	77	52	1	11	33	1.47
405547--405673	30	4.2	29	76	8	103	52	2	11	33	1.51
406747--406848	41	2.5	41	87	1	143	33	14	4	47	1.66
424921--424961	15	2.7	15	84	0	64	29	4	21	43	1.73
426269--426293	7	3.6	7	100	0	50	36	0	0	64	0.94
436227--436371	46	3.2	46	87	0	218	24	19	12	44	1.85
436423--436981	81	6.9	81	86	1	751	28	21	11	38	1.89
437330--437370	18	2.3	19	79	12	50	29	19	0	51	1.47
441726--441771	20	2.3	21	78	17	53	71	8	8	10	1.30
441825--441887	22	3.1	19	71	20	56	76	6	6	11	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441828--441900	23	3.1	23	78	11	69	76	5	5	12	1.12
441847--441903	23	2.5	23	82	2	71	78	5	3	12	1.03
442098--442129	16	2.1	16	94	5	57	84	0	0	15	0.63
443927--444245	124	2.6	122	83	3	390	25	15	24	33	1.95
445134--445192	6	9.0	6	85	10	64	0	18	1	79	0.81
455460--455515	27	2.0	27	86	10	76	75	3	7	14	1.16
455472--455525	28	2.0	27	82	10	65	72	5	7	14	1.26
458556--458590	18	1.9	18	94	0	61	54	25	2	17	1.57
458650--458919	140	1.9	140	97	0	513	28	13	15	42	1.85
458890--459114	20	11.9	20	76	11	213	33	22	16	26	1.96
458898--459163	54	4.8	54	79	6	275	33	22	17	25	1.96
459157--459194	20	1.9	20	94	0	67	10	21	18	50	1.76
459332--459370	14	2.8	14	92	0	60	46	15	0	38	1.46
460772--460883	42	2.7	42	75	8	104	25	18	35	20	1.95
461369--461415	20	2.5	18	81	18	60	40	25	19	14	1.90
461380--461435	20	2.8	20	91	0	85	35	23	19	21	1.96
461478--461545	20	3.4	20	95	0	118	17	20	26	35	1.95
461693--461742	18	2.8	18	100	0	100	42	6	20	32	1.76
467600--467641	22	1.9	22	90	9	68	14	11	4	69	1.34
469127--469233	20	5.4	20	85	3	119	45	23	16	14	1.84
469820--469871	20	2.6	20	93	0	86	23	17	26	32	1.96
469815--469910	20	4.8	20	75	7	70	22	20	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482027--482169	64	2.2	64	86	8	193	34	16	21	27	1.95
482045--482169	64	1.9	65	90	6	200	35	16	20	27	1.94
482661--482695	18	1.9	18	88	11	54	54	5	17	22	1.64
482814--482859	2	24.0	2	86	8	69	47	2	0	50	1.13
483589--483900	147	2.1	148	91	4	506	26	17	21	34	1.95
483868--483912	23	2.0	23	90	0	72	22	26	26	24	2.00
487082--487242	64	2.5	64	82	10	204	33	16	21	27	1.95
487728--487762	18	1.9	18	88	11	54	54	5	17	22	1.64
488924--488969	23	2.0	23	91	0	74	21	28	26	23	1.99
497899--497951	27	2.0	27	84	0	70	30	3	28	37	1.75
499064--499103	17	2.3	18	82	8	55	40	2	2	55	1.27
503506--503538	12	2.5	13	90	9	50	45	0	0	54	0.99
515626--515679	28	1.9	28	92	0	90	50	12	3	33	1.59
523564--523624	5	11.8	5	82	6	59	14	3	1	80	0.92
529086--529139	20	2.7	20	77	11	74	27	31	14	25	1.95
529147--529193	21	2.2	21	92	0	85	21	25	17	36	1.94
529184--529251	20	3.4	20	91	4	111	38	25	17	19	1.93
529243--529293	19	2.7	19	90	0	75	41	21	5	31	1.77
530212--530282	24	3.0	24	95	0	124	28	22	15	33	1.95
530469--530493	12	2.1	12	100	0	50	72	0	28	0	0.86
532557--532592	18	2.0	18	88	0	54	55	22	2	19	1.56
532878--533000	20	6.5	20	70	14	91	42	22	19	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533135--533184	25	2.0	25	96	0	91	26	8	22	44	1.80
533570--533606	18	2.1	18	89	0	56	32	5	10	51	1.60
533562--533614	24	2.2	24	86	0	70	35	3	13	47	1.61
533916--534041	39	3.2	39	97	0	234	46	20	15	17	1.83
535860--535920	21	2.9	20	73	9	50	18	22	44	14	1.86
535878--535976	42	2.4	42	76	10	103	22	20	35	22	1.96
538132--538181	19	2.5	20	90	3	75	42	22	22	14	1.88
538461--538511	22	2.3	22	96	0	93	21	13	43	21	1.87
538639--538779	20	7.1	20	75	13	130	21	18	21	38	1.94
538647--538779	60	2.2	60	85	2	187	21	18	22	37	1.94
538639--538841	80	2.5	81	80	10	206	23	16	22	37	1.93
538927--538982	28	2.0	29	86	10	80	25	0	8	66	1.21
539090--539268	20	8.9	20	73	12	125	40	21	21	17	1.92
539174--539281	40	2.7	40	92	0	180	37	23	22	16	1.93
539148--539268	60	2.0	61	90	6	192	37	23	22	17	1.94
539152--539281	20	6.4	20	78	8	138	36	24	21	16	1.94
539392--539440	6	8.2	6	100	0	98	34	48	16	0	1.46
540198--540236	6	6.5	6	100	0	78	0	15	51	33	1.44
540347--540516	20	8.4	20	77	11	159	15	20	25	38	1.92
540347--540494	40	3.7	40	93	1	244	15	21	24	38	1.92
540360--540597	20	11.9	20	75	10	157	15	20	23	40	1.90
545451--545535	31	2.7	31	85	0	116	31	22	16	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547249--547294	14	3.2	14	82	17	51	60	0	30	8	1.26
554400--554456	20	2.7	21	89	10	89	31	15	17	35	1.92
557560--557598	19	2.1	19	100	0	78	20	10	15	53	1.70
557563--557605	19	2.3	19	92	4	70	23	11	16	48	1.78
566449--566841	65	6.0	65	90	0	606	31	15	21	32	1.94
568891--568941	23	2.2	24	83	13	63	35	0	9	54	1.33
576071--576148	32	2.6	32	82	8	92	65	10	14	10	1.47
576203--576255	16	3.3	16	97	0	97	58	13	13	15	1.64
576187--576256	32	2.2	32	84	0	95	61	12	12	12	1.57
576289--576322	14	2.4	14	95	0	59	67	20	11	0	1.21
576422--576467	22	2.1	22	83	0	56	26	19	39	15	1.91
579216--579249	17	2.0	17	94	0	59	44	5	11	38	1.65
581035--581110	36	2.1	38	82	5	93	21	10	9	59	1.58
596310--596345	2	18.5	2	94	5	65	52	0	0	47	1.00
601218--601248	3	10.3	3	100	0	62	0	0	32	67	0.91
604857--604898	19	2.1	21	91	8	70	21	14	9	54	1.68
612584--612655	21	3.4	21	94	0	117	31	29	20	18	1.96
612618--612800	90	2.0	92	84	8	241	28	22	19	30	1.98
612752--612857	21	5.0	21	70	15	85	24	20	20	33	1.97
612762--612856	42	2.3	42	94	0	172	24	21	21	33	1.97
612927--612966	6	6.7	6	100	0	80	32	50	17	0	1.47
612967--612997	5	6.4	5	96	3	55	35	22	41	0	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613490--613720	117	2.0	117	95	0	417	37	20	17	24	1.94
613710--613762	21	2.5	21	90	0	79	22	22	26	28	1.99
614002--614047	16	2.8	17	90	9	62	43	0	6	50	1.28
614008--614047	16	2.6	16	96	4	73	37	0	5	57	1.21
614845--614894	23	2.2	23	82	7	57	54	2	10	34	1.45
621893--621942	26	1.9	26	95	0	91	54	8	10	28	1.62
623418--623543	42	2.9	42	86	4	162	46	17	10	25	1.79
628576--628635	23	2.6	23	89	0	84	20	25	28	26	1.99
636557--636665	21	5.0	22	77	12	109	38	22	16	22	1.93
636538--636623	44	2.0	44	86	6	122	36	24	19	19	1.95

Tables:   1   2   3   4   5   6   7   8