genome.fa.s1709.2.7.7.80.10.50.1000.4.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: VEPZ01001709.1 Hibiscus syriacus cultivar Beakdansim tig00003435_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1326839

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 866 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)
531206--531302	42	2.3	41	82	5	115	26	17	23	31	1.97
531640--531742	42	2.5	41	80	4	109	26	19	21	33	1.97
531816--531866	16	3.5	15	76	10	52	76	0	17	5	0.98
532911--533005	2	47.5	2	85	4	93	47	7	3	42	1.47
537650--538033	43	8.9	43	81	9	354	26	14	25	33	1.95
537652--537988	129	2.6	128	87	3	464	26	14	25	33	1.94
537908--538076	43	3.8	45	86	6	222	21	16	26	36	1.94
537908--538076	88	1.9	88	85	7	236	21	16	26	36	1.94
538476--538562	21	4.1	21	83	2	77	3	34	19	42	1.68
543750--543837	43	2.1	43	91	6	144	42	13	11	32	1.80
543812--544048	42	5.7	41	81	4	242	35	17	19	27	1.94
548560--548616	1	57.0	1	80	0	51	0	3	8	87	0.64
548562--548615	9	5.9	9	80	20	67	0	3	9	87	0.67
548560--548616	11	4.8	11	80	16	69	0	3	8	87	0.64
548560--548614	17	2.9	19	79	15	78	0	3	9	87	0.66
548553--548615	29	2.1	30	91	2	101	0	4	11	84	0.77
549868--549952	41	2.1	41	88	4	127	31	18	18	30	1.96
551359--551469	41	2.7	41	91	4	181	36	15	12	36	1.85
551360--551512	41	3.8	39	87	6	157	33	16	12	37	1.86
551360--551537	82	2.2	81	80	4	187	34	16	12	36	1.87
551484--551643	42	3.9	39	75	15	128	26	18	18	36	1.94
551531--551684	82	1.9	83	91	4	258	23	20	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551545--551684	42	3.4	41	76	11	160	22	20	20	36	1.95
552675--552757	3	26.7	3	90	7	130	34	0	0	65	0.93
552675--552754	22	3.6	22	90	6	126	35	0	0	65	0.93
552675--552757	25	3.3	25	90	5	132	34	0	0	65	0.93
554876--554915	13	2.8	14	85	14	55	47	0	2	50	1.14
554876--554916	15	2.9	13	89	10	55	48	0	2	48	1.14
563661--563706	20	2.3	19	85	14	58	26	15	8	50	1.73
577520--578203	256	2.7	256	87	2	978	34	16	15	33	1.90
578340--578378	3	12.7	3	84	15	53	30	2	0	66	1.05
579410--580387	258	3.9	257	79	8	900	33	15	16	34	1.91
579932--580018	41	2.1	42	84	2	113	28	18	21	31	1.97
579911--580622	237	3.0	236	85	2	924	31	15	17	34	1.92
580825--580869	13	3.5	13	82	17	58	82	0	13	4	0.82
580825--580875	24	2.1	24	85	3	66	78	0	15	5	0.93
581922--581952	2	15.5	2	100	0	62	48	0	0	51	1.00
583163--583197	12	2.9	12	95	0	61	65	0	31	2	1.07
583373--583425	22	2.5	21	84	3	70	26	0	1	71	0.96
584121--584249	39	3.4	37	74	16	122	18	11	10	58	1.61
584312--584339	2	14.0	2	100	0	56	50	0	0	50	1.00
586132--587385	237	5.0	253	78	7	1077	32	16	17	34	1.92
586658--586741	41	2.0	42	81	6	100	26	19	22	32	1.97
587364--587402	20	2.0	20	100	0	78	15	23	30	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587368--587414	20	2.3	20	88	0	67	21	23	27	27	1.99
587569--587595	12	2.2	12	100	0	54	77	0	22	0	0.76
587567--587610	16	2.9	15	83	12	54	77	0	20	2	0.88
588594--588632	2	19.5	2	100	0	78	48	0	0	51	1.00
588694--588737	2	22.5	2	82	13	56	45	2	0	52	1.13
591146--591171	2	13.0	2	100	0	52	50	0	0	50	1.00
591230--591290	2	30.5	2	96	0	104	50	3	0	45	1.17
592949--593921	258	3.9	256	82	5	988	33	15	17	33	1.91
593471--593557	42	2.1	42	82	6	106	27	20	21	29	1.98
593450--594037	237	2.5	236	86	3	822	31	16	18	33	1.93
594892--594927	3	11.7	3	88	5	54	33	0	0	66	0.92
596894--596924	2	15.5	2	100	0	62	48	0	0	51	1.00
597101--597134	14	2.5	14	90	4	52	35	2	0	61	1.11
604914--605005	42	2.2	41	83	9	116	25	22	19	32	1.97
604542--605478	256	3.7	256	84	5	1198	34	15	16	33	1.90
606684--608096	237	5.6	257	78	8	1039	32	15	16	34	1.91
607184--607276	42	2.2	41	81	5	107	27	21	17	33	1.96
607203--607282	21	3.8	21	67	18	58	28	18	21	31	1.97
607204--607299	41	2.3	42	83	5	115	27	20	21	30	1.98
607917--608018	42	2.5	42	79	4	100	27	20	18	33	1.96
608100--608138	18	2.2	18	85	0	51	76	0	17	5	0.96
608113--608184	24	2.9	24	78	15	76	70	0	16	12	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609143--609213	2	35.5	2	97	0	133	47	0	0	52	1.00
610066--610123	29	2.0	29	82	0	71	15	31	27	25	1.96
610261--610337	29	2.7	29	93	0	136	24	27	33	14	1.94
618553--618677	21	5.9	20	84	14	130	28	25	17	28	1.98
618553--618676	45	2.8	46	84	11	172	28	25	17	28	1.98
619554--619581	2	14.0	2	100	0	56	50	0	0	50	1.00
619806--619873	21	3.2	21	93	4	111	35	0	45	19	1.50
620236--620362	56	2.3	55	82	6	141	30	24	21	23	1.99
620347--620398	18	2.8	19	88	5	79	26	34	19	19	1.95
622520--622550	15	2.1	15	100	0	62	19	12	22	45	1.84
628978--629042	2	33.0	2	79	14	64	47	1	4	46	1.32
628962--629034	35	2.1	35	100	0	146	45	2	8	43	1.48
629372--629398	13	2.1	13	100	0	54	29	22	14	33	1.94
630112--630286	43	4.1	42	78	7	174	20	22	15	41	1.89
630123--630281	86	1.8	86	87	0	237	21	21	16	40	1.91
630123--630305	86	2.1	86	81	4	217	23	21	15	38	1.92
635501--635598	18	5.7	18	86	7	141	34	6	29	29	1.82
635501--635598	34	2.9	35	87	6	139	34	6	29	29	1.82
636136--636723	216	2.8	208	86	8	798	36	25	11	25	1.90
639578--639819	122	2.0	123	81	5	285	31	17	17	33	1.93
644209--644246	20	1.9	20	88	0	58	21	26	10	42	1.85
646102--646216	44	2.6	45	84	2	142	16	25	25	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646580--646654	38	2.0	38	89	5	116	25	5	13	56	1.58
648836--649019	2	96.5	2	67	21	94	40	2	5	50	1.41
650213--650246	12	2.8	12	100	0	68	61	0	32	5	1.20
650962--650994	2	16.5	2	100	0	66	48	0	0	51	1.00
652516--652542	2	13.5	2	100	0	54	48	0	0	51	1.00
653982--654056	37	2.0	37	94	0	132	22	20	17	40	1.92
654265--654387	42	3.0	42	84	1	140	29	22	20	27	1.98
654062--654618	236	2.4	233	89	3	807	34	17	16	31	1.92
654523--654650	42	3.1	42	86	1	168	33	21	17	27	1.96
663517--663570	17	3.2	17	91	0	90	53	14	1	29	1.52
664078--664250	93	1.9	93	95	0	310	20	19	29	30	1.97
664498--664582	2	42.5	2	100	0	170	49	0	0	50	1.00
666017--666047	15	2.1	15	100	0	62	19	12	22	45	1.84
666353--666565	114	1.8	117	89	6	335	31	25	6	36	1.82
667154--667179	3	8.7	3	100	0	52	30	0	0	69	0.89
669185--669237	21	2.5	21	87	0	79	20	24	18	35	1.95
669227--669377	20	7.6	20	86	3	207	38	21	18	21	1.93
669557--669622	22	3.0	22	79	0	78	24	36	15	24	1.93
669936--670009	33	2.2	34	85	7	98	10	17	25	45	1.81
669981--670030	20	2.5	20	93	0	82	12	14	24	50	1.76
669995--670038	20	2.2	20	87	0	61	13	13	20	52	1.74
670458--670525	20	3.4	20	81	0	73	17	14	23	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670496--670535	20	2.0	20	85	0	53	15	12	22	50	1.77
672411--672552	20	7.8	20	75	20	123	41	22	19	16	1.90
672434--672514	33	2.4	33	83	2	99	45	23	19	11	1.82
673057--673161	21	5.0	21	72	3	86	20	36	19	23	1.95
673054--673164	42	2.6	42	77	5	109	20	36	18	23	1.95
674546--674581	14	2.6	14	90	0	54	30	0	22	47	1.52
674706--674781	33	2.3	34	90	2	127	46	18	22	13	1.83
674793--674891	33	2.9	33	87	3	126	14	23	18	44	1.86
674793--674891	34	2.9	34	86	3	128	14	23	18	44	1.86
674868--674951	20	4.2	20	90	3	134	17	22	25	34	1.96

Tables:   1   2   3   4   5   6   7   8