genome.fa.s8062.2.7.7.80.10.50.1000.3.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: VEPZ01008062.1 Hibiscus syriacus cultivar Beakdansim tig00110557_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2089609

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 995 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)
427135--427211	36	2.1	36	85	4	100	27	22	15	35	1.94
427383--427454	37	1.9	37	85	0	99	26	20	12	40	1.88
428032--428620	106	5.5	106	87	2	854	36	23	17	22	1.95
428032--428857	213	4.0	211	82	9	971	35	23	18	23	1.95
428536--428683	43	3.5	42	72	10	147	39	22	18	20	1.93
428532--428710	86	2.1	86	91	0	295	37	21	18	22	1.94
428426--428782	192	1.9	192	88	2	547	38	22	16	22	1.93
428618--428843	106	2.1	106	81	1	256	34	23	18	23	1.96
430086--430125	18	2.3	18	83	8	57	25	5	2	67	1.23
438611--438637	2	13.5	2	100	0	54	0	48	0	51	1.00
444192--444243	26	2.0	27	84	3	70	55	0	1	42	1.10
448846--448888	20	2.2	20	87	8	61	46	20	16	16	1.84
448962--449017	20	2.8	20	100	0	112	41	25	19	14	1.89
449063--449155	20	4.7	20	75	2	98	39	18	18	23	1.92
449060--449155	40	2.4	40	89	0	156	40	17	17	23	1.91
452453--452528	4	19.0	4	94	0	98	42	0	0	57	0.98
456827--456882	22	2.5	22	100	0	112	26	25	21	26	1.99
457869--457927	30	2.0	30	89	0	91	45	10	13	30	1.76
458048--458169	62	2.0	60	92	4	201	39	21	11	27	1.88
460916--460989	18	3.9	18	77	10	85	24	21	31	22	1.99
460913--460990	39	2.0	39	94	0	138	25	21	29	23	1.99
461172--461214	22	1.9	23	85	4	61	20	0	27	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461234--461292	18	3.3	18	87	0	91	38	5	27	28	1.78
461303--461348	21	2.2	21	100	0	92	26	0	34	39	1.57
466353--466498	74	2.0	74	91	0	238	32	8	18	39	1.82
466480--466579	46	2.2	44	96	3	182	46	3	11	40	1.55
482086--482116	13	2.4	13	94	0	53	45	0	38	16	1.47
493960--494005	19	2.5	20	75	13	53	47	0	6	45	1.28
503794--503899	18	5.0	21	75	21	80	30	30	23	16	1.96
503841--503892	18	2.9	18	100	0	104	26	32	23	17	1.96
516433--516480	3	16.0	3	87	8	71	37	0	0	62	0.95
516510--516546	13	2.8	13	95	0	65	27	32	16	24	1.96
517882--517938	28	2.0	27	83	10	69	33	1	1	63	1.15
517913--517975	12	5.5	11	81	11	65	31	3	1	63	1.19
517920--517975	23	2.4	23	85	14	80	33	3	0	62	1.12
517908--517983	11	6.2	12	72	15	57	31	2	1	64	1.15
520491--520519	13	2.3	13	94	5	51	24	13	6	55	1.63
532621--532668	8	5.9	8	92	2	69	72	0	14	12	1.11
532622--532668	24	1.9	24	91	4	76	72	0	14	12	1.13
535766--535905	75	1.9	75	87	0	208	33	17	20	27	1.96
535766--535933	75	2.2	75	83	0	201	30	17	22	29	1.96
537964--539010	46	22.8	46	95	0	1837	24	21	19	35	1.96
539136--539173	3	13.0	3	94	5	69	34	0	0	65	0.93
539140--539173	17	2.0	17	100	0	68	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539137--539179	20	2.2	20	95	0	77	37	0	0	62	0.95
539225--539249	13	1.9	13	100	0	50	32	32	12	24	1.91
540818--540880	12	5.5	11	78	16	65	30	3	1	65	1.18
540825--540880	23	2.4	24	88	8	89	32	3	0	64	1.11
540785--540888	6	17.5	6	70	23	51	32	2	0	63	1.16
540897--540959	2	31.5	2	90	0	99	47	0	3	49	1.17
541128--541380	130	1.9	129	82	10	311	38	6	7	47	1.57
544844--545271	143	3.0	142	87	2	561	32	14	17	36	1.89
545532--545578	24	2.0	24	86	0	67	46	2	0	51	1.13
549327--549378	10	4.9	10	75	13	50	59	23	7	9	1.54
549327--549409	23	3.6	23	76	9	87	59	20	8	12	1.59
549579--549614	14	2.6	14	90	0	54	52	22	13	11	1.72
549578--549635	14	4.4	14	70	16	52	56	18	12	12	1.65
550818--550874	20	2.7	20	78	15	62	31	21	19	28	1.97
552309--552375	23	2.9	23	84	0	89	19	25	23	31	1.98
564535--564589	27	2.0	27	100	0	110	43	16	21	18	1.88
565926--566055	29	4.5	29	93	0	215	33	5	23	37	1.77
573577--573663	32	2.7	32	76	5	86	13	32	29	24	1.94
573718--573770	25	2.1	25	85	0	70	28	5	16	49	1.69
581323--581348	2	13.0	2	100	0	52	50	0	0	50	1.00
581406--581458	23	2.3	23	96	0	97	28	7	7	56	1.54
582184--582266	31	2.7	31	88	0	121	26	26	13	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583256--583364	31	3.5	31	89	2	157	25	25	11	36	1.90
587032--587059	2	14.0	2	100	0	56	50	0	0	50	1.00
589226--589766	178	3.0	180	98	1	1041	33	19	9	37	1.85
609343--609385	19	2.3	19	91	0	68	30	9	32	27	1.88
614274--614386	57	2.0	57	100	0	226	31	12	25	30	1.92
615254--615291	6	6.3	6	100	0	76	68	0	0	31	0.90
618094--618196	31	3.5	29	76	6	91	41	7	9	40	1.67
618279--618356	32	2.6	30	82	9	95	48	10	3	37	1.55
618303--618367	29	2.2	30	83	5	89	60	7	3	29	1.40
626624--626845	111	2.0	111	94	1	392	47	10	6	35	1.63
627132--627257	50	2.5	50	77	10	141	22	28	31	17	1.96
643162--643212	27	2.0	26	92	7	86	35	0	0	64	0.94
646297--646328	2	16.0	2	100	0	64	50	0	0	50	1.00
647350--647387	20	1.9	20	84	10	51	10	10	36	42	1.74
648546--648579	17	1.9	18	88	5	52	44	14	8	32	1.76
650454--650505	20	2.6	20	96	0	95	40	19	13	26	1.88
665674--665718	2	22.5	2	100	0	90	51	0	0	48	1.00
668901--668964	23	2.8	23	90	0	92	31	9	43	15	1.78
669268--669843	45	12.8	45	92	0	875	34	19	22	23	1.97
670527--670579	20	2.5	21	87	6	72	39	15	11	33	1.83
671926--672097	75	2.4	69	84	8	218	27	22	17	32	1.96
671975--672174	75	2.7	74	80	4	204	28	21	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673009--673039	12	2.6	12	100	0	62	45	9	25	19	1.81
674436--674502	32	2.1	32	91	0	107	17	13	20	47	1.81
674938--674980	9	5.0	9	80	8	54	0	20	0	79	0.74
677845--677930	43	2.0	44	83	2	111	34	19	12	32	1.90
678389--678457	36	1.9	36	84	0	93	24	11	23	40	1.88
679276--679357	22	3.7	22	69	11	60	68	1	2	28	1.10
679281--679367	28	3.1	28	79	14	83	65	1	3	29	1.16
686928--686959	16	2.0	16	93	0	55	59	0	3	37	1.13
702309--702400	40	2.4	37	87	5	121	30	11	6	51	1.64
704991--705092	39	2.6	39	95	0	177	52	11	12	22	1.71
707470--707508	18	2.2	18	95	4	71	35	0	0	64	0.94
708177--708355	21	8.6	21	86	7	240	30	24	21	23	1.99
708364--708500	21	6.6	21	79	8	145	23	21	24	29	1.99
708177--708437	125	2.1	125	85	4	348	29	23	22	24	1.99
709220--709301	23	3.8	22	78	15	100	37	23	20	18	1.94
709216--709310	42	2.3	42	96	0	172	36	24	20	18	1.95
709213--709316	21	5.0	21	74	15	99	35	23	21	20	1.96
710063--710144	41	2.0	40	85	2	110	18	26	36	18	1.94
712096--712156	24	2.5	24	86	0	95	29	16	24	29	1.96
713747--713779	15	2.2	15	89	10	50	9	24	33	33	1.87
713908--713953	22	2.1	22	84	8	58	60	0	0	39	0.97
713999--714047	24	2.1	23	84	3	62	53	0	2	44	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
714322--714374	21	2.5	21	81	0	61	22	26	18	32	1.97
714364--714409	20	2.3	20	92	0	74	36	19	19	23	1.95
714376--714416	20	2.0	20	90	0	64	36	17	19	26	1.94
714546--714759	20	10.6	20	80	6	243	19	19	24	36	1.94
714548--714759	41	5.2	41	93	1	347	19	18	24	37	1.94
714768--714820	20	2.7	20	91	5	81	13	18	24	43	1.86
714545--714819	61	4.6	60	74	8	166	18	18	24	37	1.94
724960--725043	33	2.7	32	83	7	109	23	8	44	23	1.81
725027--725106	36	2.2	36	100	0	160	21	5	47	26	1.71
725080--725256	95	1.9	95	87	2	266	26	2	46	23	1.66

Tables:   1   2   3   4   5   6   7   8   9