genome.fa.s9344.2.7.7.80.10.50.1000.4.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  4  of  24  ( 2784 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)
511869--511932	20	3.3	20	68	12	53	43	4	6	45	1.50
511935--511996	25	2.6	23	84	7	70	40	4	6	48	1.50
511952--512012	23	2.6	24	82	10	72	40	4	6	47	1.51
512016--512696	214	3.2	213	89	4	1032	29	11	8	50	1.68
516546--516571	11	2.4	11	100	0	52	15	30	19	34	1.93
520751--520832	29	2.8	29	94	1	137	32	14	9	42	1.79
521954--521985	12	2.4	14	90	10	50	59	12	18	9	1.59
522121--522150	15	2.0	15	93	0	51	56	23	0	20	1.42
525523--525604	29	2.8	29	94	1	137	32	14	9	42	1.79
527206--527266	20	3.1	20	81	11	81	14	26	37	21	1.92
528708--528755	19	2.4	21	80	13	57	29	10	6	54	1.59
529615--529686	34	2.2	32	87	7	99	22	30	15	31	1.94
530031--530110	19	4.1	19	82	6	97	15	26	40	18	1.90
530031--530110	20	4.0	20	84	10	110	15	26	40	18	1.90
530031--530107	21	3.8	21	83	13	99	15	27	38	18	1.91
568736--568780	15	3.0	15	96	0	81	48	0	0	51	1.00
568811--568853	22	2.0	22	95	0	77	37	0	11	51	1.39
568736--569058	54	6.1	54	85	7	423	37	0	10	52	1.37
568869--568924	22	2.5	22	97	0	103	35	0	12	51	1.40
568887--569170	134	2.1	134	97	0	532	32	0	14	52	1.42
569012--569059	22	2.4	18	73	23	51	33	0	14	52	1.42
569068--569287	32	7.7	32	71	25	197	33	0	13	53	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568989--569282	112	2.6	112	88	3	360	32	0	14	53	1.41
569101--569143	22	2.0	22	100	0	86	34	0	13	51	1.42
569069--569304	54	4.3	54	89	4	364	33	0	13	53	1.40
568833--569345	246	2.1	236	93	3	882	33	0	13	52	1.41
568934--569345	134	3.0	138	82	12	412	33	0	14	52	1.41
569359--569418	31	1.9	31	93	0	102	43	10	6	40	1.64
572423--572463	21	2.0	21	85	9	57	19	0	14	65	1.26
579297--579359	24	2.6	24	97	0	117	15	20	12	50	1.77
579516--579594	24	3.2	24	67	10	68	6	21	26	45	1.75
579507--579659	51	3.0	51	90	1	227	5	18	29	46	1.72
579531--579610	24	3.2	25	68	21	69	6	20	31	42	1.76
581164--581197	6	5.7	6	100	0	68	17	0	50	32	1.47
582771--582890	41	3.0	40	91	3	188	34	3	18	44	1.66
584024--584056	14	2.4	14	90	10	50	57	3	12	27	1.49
584058--584117	26	2.4	25	82	15	72	66	3	8	21	1.33
584058--584117	25	2.4	26	83	8	81	66	3	8	21	1.33
585589--586168	39	15.0	39	88	1	808	22	27	11	38	1.88
585589--586692	78	14.3	78	84	4	1335	21	26	11	40	1.87
585589--586692	117	9.6	117	86	3	1423	21	26	11	40	1.87
585786--585850	20	3.3	20	62	12	53	20	27	10	41	1.85
586056--586119	20	3.2	20	65	20	53	23	28	10	37	1.89
586134--586194	26	2.3	26	88	0	86	21	27	8	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586095--586229	65	2.1	65	88	0	198	21	26	9	42	1.84
586160--586692	39	13.6	39	88	1	724	21	25	11	41	1.86
586318--586382	20	3.3	20	64	20	55	23	24	10	41	1.86
586825--587090	36	7.3	35	64	18	114	39	12	16	30	1.86
586700--587103	73	5.5	73	92	0	657	39	12	15	32	1.85
586700--587103	219	1.8	218	95	0	736	39	12	15	32	1.85
587801--587877	22	3.5	23	87	7	106	37	11	12	37	1.81
588862--588934	38	1.9	38	94	0	128	24	26	16	32	1.96
590642--590706	9	6.9	9	84	8	67	3	13	0	83	0.77
592534--592692	79	2.0	80	98	1	311	24	26	11	37	1.89
593199--593246	14	3.5	14	72	16	55	50	12	20	16	1.78
593196--593262	27	2.5	27	97	0	125	53	10	19	16	1.71
593239--593281	22	2.0	22	95	4	79	58	9	18	13	1.62
593250--593312	14	4.1	14	81	18	65	61	7	15	14	1.54
593240--593301	16	4.1	15	82	17	67	59	8	16	16	1.59
593250--593301	8	6.6	8	74	12	54	61	7	15	15	1.55
593250--593312	16	4.1	15	79	20	60	61	7	15	14	1.54
599602--599677	35	2.2	35	95	0	134	39	22	1	36	1.63
600072--600319	130	1.9	130	90	0	397	37	14	12	35	1.84
600246--600292	23	2.1	21	84	7	58	36	14	14	34	1.88
600086--600350	130	2.0	129	79	4	282	40	12	12	33	1.82
600779--600812	16	2.0	18	88	11	54	64	5	2	26	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604067--604096	13	2.3	13	100	0	60	46	0	0	53	1.00
607292--607855	90	6.3	90	91	0	851	34	20	17	27	1.95
607814--607987	42	4.1	42	77	1	152	32	22	17	27	1.96
608016--608275	43	6.0	43	90	3	398	27	32	14	25	1.95
608016--608275	87	3.0	86	91	2	398	27	32	14	25	1.95
608179--608247	23	3.1	22	63	12	52	30	34	13	21	1.91
608016--608275	130	2.0	128	89	3	396	27	32	14	25	1.95
608669--608750	41	2.0	41	83	4	103	34	20	7	37	1.81
608746--608936	52	3.8	50	81	8	219	23	26	16	34	1.95
610068--610138	6	11.5	6	81	13	65	7	12	0	80	0.90
610072--610137	24	2.7	25	79	9	73	7	12	0	80	0.91
610065--610153	32	3.2	29	67	23	57	5	15	0	78	0.93
610065--610140	7	10.4	7	74	23	52	6	14	0	78	0.93
610112--610160	22	2.3	21	79	10	55	2	20	0	77	0.87
612646--612682	2	18.5	2	100	0	74	0	0	48	51	1.00
612785--612846	22	2.9	22	95	2	108	48	8	22	20	1.76
613048--613113	27	2.7	23	77	11	62	30	18	25	25	1.98
619718--619764	2	24.5	2	91	8	80	51	0	0	48	1.00
622172--622214	9	4.7	9	78	16	52	48	0	0	51	1.00
622172--622214	19	2.3	18	77	14	52	48	0	0	51	1.00
624844--624906	25	2.9	22	78	19	69	31	6	30	31	1.83
624880--624916	19	1.9	19	100	0	74	37	5	29	27	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
625214--625253	21	1.9	21	84	0	53	35	22	22	20	1.96
626890--627081	91	2.1	90	87	1	269	44	14	5	35	1.69
630140--630263	50	2.5	49	80	7	142	16	31	28	24	1.96
630539--630760	111	2.0	111	95	1	401	35	8	11	44	1.71
632526--632588	6	10.5	6	80	0	63	30	20	34	14	1.92
632529--632584	15	3.7	15	80	0	67	30	19	35	14	1.91
632802--632886	35	2.5	33	78	14	91	25	8	10	55	1.62
645627--645695	33	2.3	29	85	12	86	50	0	2	46	1.16
645637--645767	31	4.3	29	69	17	79	45	0	3	50	1.19
645642--645710	33	2.1	33	84	12	90	47	0	2	49	1.16
645728--645780	23	2.5	21	77	14	63	43	0	1	54	1.11
645599--645767	91	1.9	86	82	10	207	47	0	2	49	1.16
645736--645780	23	2.0	23	90	0	72	44	0	2	53	1.13
645737--645805	23	3.0	23	82	6	68	46	0	2	50	1.16
645728--645809	35	2.4	34	74	22	84	43	0	2	53	1.13
645868--645918	23	2.2	23	86	6	68	45	1	1	50	1.24
645901--645962	30	2.1	29	82	8	72	51	0	1	46	1.10
646187--646277	42	2.2	43	82	9	116	54	14	7	23	1.65
650063--650113	24	2.1	24	92	0	84	31	17	5	45	1.72
652496--652551	27	2.0	27	86	3	76	55	5	7	32	1.50
659464--659563	52	1.9	51	90	6	157	31	17	18	34	1.93
659706--659754	6	8.2	6	81	0	53	36	28	12	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659758--659798	6	6.8	6	100	0	82	31	0	17	51	1.46
662881--662948	30	2.3	30	100	0	136	35	4	23	36	1.75
668039--668491	58	7.8	58	90	1	672	36	18	12	32	1.88
672630--672670	10	4.2	10	79	17	50	36	0	0	63	0.95
673109--673182	38	1.9	38	97	0	139	31	24	16	28	1.96
673984--674035	24	2.2	23	86	3	68	42	0	1	55	1.10
674494--674531	13	2.9	13	92	0	67	50	0	0	50	1.00
674506--674553	25	2.0	25	84	11	66	43	4	2	50	1.33
674959--674992	2	17.0	2	100	0	68	50	0	0	50	1.00
676607--676663	12	4.6	12	80	12	62	43	1	1	52	1.21

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24