genome.fa.s7773.2.7.7.80.10.50.1000.3.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: VEPZ01007773.1 Hibiscus syriacus cultivar Beakdansim tig00110054_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  557494

Tables:   1   2   3   

This is table  3  of  3  ( 357 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)
400253--400360	20	5.3	20	76	6	110	26	18	24	30	1.98
400375--400420	19	2.4	19	88	3	65	19	17	32	30	1.95
400386--400422	19	1.9	19	100	0	74	18	16	32	32	1.93
400581--400627	21	2.3	21	85	10	62	36	6	2	55	1.37
404625--404751	60	2.1	60	89	0	191	18	28	32	21	1.96
408439--408498	23	2.6	23	80	17	70	28	0	1	70	0.97
409611--409660	24	2.1	24	100	0	100	38	0	8	54	1.30
410792--410879	33	2.6	33	85	7	106	19	1	15	63	1.37
414332--414368	16	2.3	16	85	0	56	67	5	2	24	1.25
416690--416773	43	2.0	43	87	0	123	41	13	14	30	1.84
428557--428601	14	3.3	14	76	17	58	53	0	22	24	1.46
430020--430114	19	5.0	19	83	2	102	47	6	16	29	1.71
431990--432042	22	2.5	22	96	3	99	33	9	28	28	1.88
433526--433580	27	2.0	27	85	0	74	10	29	29	30	1.91
433573--433634	31	2.0	31	90	0	97	22	24	25	27	2.00
433904--433982	32	2.5	32	82	0	86	18	26	26	27	1.98
437256--437286	16	1.9	16	93	0	53	54	3	12	29	1.53
440380--440412	15	2.1	16	88	5	50	57	15	0	27	1.38
443462--443534	35	2.1	35	84	5	94	35	12	16	35	1.86
443513--443554	17	2.4	18	84	8	59	52	11	4	30	1.59
454172--454220	5	9.8	5	77	0	53	20	4	2	73	1.10
457469--457494	5	5.2	5	100	0	52	0	19	57	23	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458490--458583	32	2.9	32	75	6	100	24	11	23	40	1.88
459091--459132	19	2.3	18	80	11	50	19	4	4	71	1.22
463566--464454	114	7.8	114	94	3	1420	38	13	19	28	1.89
463566--464454	226	3.9	226	94	2	1498	38	13	19	28	1.89
463561--464454	340	2.6	339	92	3	1465	38	13	19	28	1.89
464782--464845	3	21.3	3	93	0	110	35	1	0	62	1.05
468678--468741	3	21.3	3	93	0	101	60	0	3	35	1.12
468678--468750	18	4.1	17	87	8	94	60	1	2	35	1.20
469069--469731	114	5.8	114	93	3	1016	28	19	13	38	1.89
469069--469731	340	1.9	340	89	4	1030	28	19	13	38	1.89
470471--471027	83	6.7	83	96	0	1001	35	20	14	29	1.92
471790--471829	19	2.1	19	90	0	62	52	10	5	32	1.56
472163--472208	18	2.6	17	78	18	58	0	19	0	80	0.71
472172--472209	13	2.9	13	84	11	51	0	18	0	81	0.69
483014--483895	113	7.8	114	92	4	1348	38	13	19	28	1.89
483014--483895	335	2.6	336	91	5	1386	38	13	19	28	1.89
484221--484284	3	21.3	3	90	0	101	37	1	0	60	1.06
484215--484284	18	3.8	18	96	1	122	37	1	1	60	1.15
487987--488053	3	22.3	3	93	0	107	61	0	2	35	1.12
488377--489035	114	5.8	114	92	4	980	28	19	13	38	1.90
488377--489035	337	1.9	337	88	5	988	28	19	13	38	1.90
488377--489035	223	2.9	223	89	6	986	28	19	13	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489778--490334	83	6.7	83	95	0	992	35	20	14	29	1.92
491096--491135	19	2.1	19	90	0	62	52	10	5	32	1.56
491469--491514	18	2.6	17	78	18	58	0	19	0	80	0.71
491478--491515	13	2.9	13	84	11	51	0	18	0	81	0.69
492132--492169	15	2.8	13	88	11	51	68	2	5	23	1.23
494323--494395	3	24.3	3	88	5	112	61	0	1	36	1.05
495807--495850	23	1.9	23	85	0	61	65	0	4	29	1.12
495834--495858	4	6.2	4	100	0	50	76	0	0	24	0.80
497411--497476	3	22.0	3	84	6	89	62	0	0	37	0.96
497619--497767	45	3.3	45	94	1	253	36	20	20	23	1.95
497941--498380	76	5.8	76	97	0	817	35	21	19	23	1.96
498383--498705	164	2.0	166	92	1	542	38	12	13	34	1.83
499218--499294	22	3.5	22	92	0	136	41	12	11	33	1.80
499661--499852	50	3.8	50	96	0	348	28	22	12	36	1.91
501941--502160	114	1.9	114	89	1	343	30	19	15	34	1.93
504315--504391	6	13.5	6	80	13	83	1	19	0	79	0.81
504311--504379	5	13.0	5	81	14	77	1	17	0	81	0.77
504311--504379	16	4.3	16	91	8	106	1	17	0	81	0.77
504312--504395	11	7.7	11	77	19	88	1	19	0	79	0.79
504311--504395	16	5.2	17	84	10	83	1	20	0	78	0.81
507234--507323	36	2.5	36	80	3	101	54	10	16	18	1.69
509626--509678	11	4.6	11	77	13	54	73	0	1	24	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509626--509671	23	1.9	25	91	8	78	73	0	0	26	0.83
509629--509683	14	4.4	13	76	19	55	74	0	1	23	0.91
509626--509683	22	2.5	23	83	8	73	74	0	1	24	0.92
510443--510486	23	1.9	23	85	0	61	65	0	4	29	1.12
512039--512122	3	27.0	3	76	7	78	57	0	0	42	0.99
514208--514238	11	2.8	11	90	0	53	25	29	9	35	1.88
518411--518711	67	4.5	67	89	2	412	31	22	16	28	1.96
518675--518812	48	2.9	48	91	0	222	28	21	16	33	1.95
518611--518924	160	2.0	160	89	3	488	31	21	15	31	1.95
518721--519268	113	4.8	113	87	3	782	29	21	16	32	1.95
518727--519277	228	2.4	226	91	1	863	30	21	16	32	1.95
519536--519621	3	28.7	3	80	9	95	38	2	0	59	1.10
519528--519610	29	2.9	29	92	3	141	38	2	0	59	1.11
519528--519621	29	3.1	29	80	14	102	38	2	0	59	1.09
521275--521312	18	2.1	18	100	0	76	44	0	15	39	1.47
525298--525338	7	6.0	7	88	5	57	43	4	26	24	1.74
525410--525470	21	2.9	21	97	0	113	31	26	18	24	1.97
525886--525983	44	2.2	44	92	1	160	31	22	7	38	1.81
526175--526657	118	4.1	118	88	1	666	29	22	10	36	1.89
526111--526668	59	9.5	59	73	7	354	29	22	10	36	1.88
528776--528812	19	1.9	19	94	0	65	64	0	10	24	1.25
530739--530769	4	8.0	4	92	7	55	77	0	0	22	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530937--531052	59	2.0	59	85	8	157	34	17	15	32	1.91
531604--531636	14	2.3	15	89	5	50	57	0	0	42	0.98
532205--532262	25	2.3	25	90	0	89	39	8	10	41	1.70
532332--532369	20	1.9	20	88	0	58	18	23	13	44	1.85
536874--536921	23	2.1	23	88	0	69	35	12	18	33	1.89
537339--537390	23	2.3	22	90	6	77	44	19	1	34	1.62
537349--537411	23	2.7	23	90	0	90	38	19	4	38	1.73
537557--537599	22	2.0	22	86	9	61	46	0	4	48	1.22
537771--537833	23	2.7	23	92	0	99	38	20	4	36	1.74
537979--538045	30	2.2	29	82	10	73	43	0	4	52	1.21
538201--538263	23	2.7	23	92	0	99	38	20	4	36	1.74
536988--538880	422	4.5	430	95	3	3451	38	12	7	41	1.72
538407--538448	22	1.9	22	85	9	59	45	0	4	50	1.23
538621--538674	23	2.3	23	93	0	90	38	18	5	37	1.74
539097--539182	39	2.2	39	93	0	145	18	13	18	48	1.80
539442--539478	18	2.1	18	89	0	56	51	10	5	32	1.60
541310--541804	183	2.7	183	95	0	884	33	17	14	34	1.90
543299--543342	9	4.6	9	78	15	52	25	34	2	38	1.68
543302--543378	12	6.4	12	84	0	73	22	31	6	40	1.79
543298--543347	6	8.3	6	86	0	64	26	32	4	38	1.75
543298--543347	15	3.3	15	91	0	73	26	32	4	38	1.75
543302--543381	6	13.3	6	78	0	61	21	31	6	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544848--546776	195	9.9	198	94	3	3405	31	17	15	35	1.92
544848--546776	389	4.9	393	95	2	3423	31	17	15	35	1.92
546895--546943	19	2.6	19	93	0	80	57	10	2	30	1.43
548805--548848	21	2.1	21	91	0	70	15	31	11	40	1.83
551044--551086	20	2.3	18	85	14	61	20	16	11	51	1.75
551049--551095	20	2.4	19	82	10	67	19	17	10	53	1.72
551319--552028	224	3.2	226	94	2	1227	38	8	7	45	1.62

Tables:   1   2   3

The End!