genome.fa.s8933.2.7.7.80.10.50.1000.4.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: VEPZ01008933.1 Hibiscus syriacus cultivar Beakdansim tig00112249_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2862162

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  4  of  14  ( 1568 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)
445893--446072	40	4.4	40	88	8	240	16	19	26	37	1.92
445893--446194	102	3.0	102	86	7	409	16	18	26	38	1.92
445893--446111	82	2.7	81	81	12	286	17	18	26	36	1.93
446300--446446	77	1.9	79	95	2	271	38	18	12	29	1.88
449834--449863	15	1.9	16	93	6	53	33	16	30	20	1.94
451498--451538	20	2.0	21	95	4	75	53	0	9	36	1.34
457048--457456	201	2.0	202	86	0	568	31	13	21	33	1.92
460634--460795	63	2.5	63	82	6	184	31	22	20	25	1.98
462480--462537	19	2.9	21	87	10	68	13	31	34	20	1.92
462489--462537	19	2.5	20	93	6	82	10	34	30	24	1.89
462940--463013	22	3.3	22	66	14	60	41	5	17	35	1.72
462951--463024	23	3.2	23	69	14	71	39	6	18	35	1.78
462925--463037	46	2.5	46	92	4	187	41	5	17	35	1.72
463186--463281	38	2.5	38	78	6	104	28	21	25	25	1.99
465262--465311	2	25.0	2	100	0	100	50	0	0	50	1.00
468620--468688	34	2.0	35	94	2	122	17	30	30	21	1.96
469092--469164	22	3.2	21	67	14	56	41	6	19	32	1.78
469076--469188	46	2.5	46	91	4	178	42	6	17	33	1.74
469337--469432	38	2.5	38	81	0	111	28	20	25	26	1.99
470149--470196	15	3.2	15	84	0	60	41	0	18	39	1.51
470634--470737	23	4.5	23	92	0	136	20	29	25	25	1.99
472107--472516	202	2.0	202	88	0	613	30	13	22	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474602--474755	59	2.7	57	89	5	240	28	26	9	35	1.88
479143--479218	29	2.5	30	79	12	75	65	3	0	30	1.10
485332--485472	5	28.2	5	100	0	282	60	0	0	39	0.97
487740--487791	15	3.2	17	72	22	58	36	21	0	42	1.53
494682--494747	2	33.0	2	100	0	132	50	0	0	50	1.00
498596--498631	17	2.1	17	90	10	56	52	0	8	38	1.32
499013--499053	21	2.0	22	90	9	68	43	4	4	46	1.46
499018--499061	21	2.2	20	87	4	61	45	9	4	40	1.56
500644--500927	90	3.1	90	88	0	424	29	15	18	36	1.92
501146--501259	60	1.9	58	83	3	147	39	15	14	30	1.87
502964--503021	31	1.9	29	86	6	80	39	5	3	51	1.41
503003--503098	30	3.2	31	77	11	101	38	10	10	40	1.74
503003--503101	29	3.3	29	77	6	108	38	10	10	41	1.73
503184--503288	30	3.6	30	82	7	126	40	9	8	40	1.68
508717--508751	11	3.1	11	87	4	52	11	42	8	37	1.72
511069--511105	2	18.5	2	100	0	74	51	0	0	48	1.00
511188--511229	4	10.5	4	100	0	84	50	26	0	23	1.50
515532--515578	22	2.1	23	84	4	60	40	25	10	23	1.87
518302--518443	69	2.1	69	97	0	266	17	11	19	51	1.76
518424--518492	31	2.2	31	94	0	120	10	14	14	60	1.58
525417--525448	2	16.0	2	100	0	64	50	0	0	50	1.00
535475--535629	4	37.0	4	67	14	55	26	4	6	62	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535492--535624	23	5.8	23	75	10	103	27	5	6	61	1.41
535513--535620	46	2.3	46	81	10	123	28	4	5	61	1.39
535536--535625	46	2.0	46	86	4	128	27	1	6	64	1.25
537726--537753	2	14.0	2	100	0	56	50	0	0	50	1.00
539676--539807	66	2.0	66	89	0	201	29	20	29	20	1.98
541449--541481	16	2.1	16	94	0	57	12	21	27	39	1.88
542526--542636	42	2.6	42	82	0	132	39	25	14	20	1.90
542068--542797	48	15.4	48	74	7	483	35	23	16	24	1.95
544478--545456	48	20.8	48	75	10	691	35	23	16	24	1.95
545200--545294	42	2.3	42	83	0	118	41	25	13	20	1.89
547848--547910	30	2.1	30	82	5	74	61	0	12	25	1.31
548052--548082	4	7.8	4	92	0	53	74	0	3	22	0.96
548140--548480	130	2.6	129	83	5	420	44	14	15	25	1.84
548154--548480	131	2.5	130	84	6	412	44	14	15	25	1.84
563489--563525	15	2.5	15	95	0	65	5	16	70	8	1.30
564304--564357	27	2.0	28	88	3	83	35	22	14	27	1.93
570408--570450	14	3.2	14	83	6	54	65	0	0	34	0.93
570434--570502	29	2.4	27	73	21	68	59	2	2	34	1.27
570259--570602	172	2.0	173	94	0	609	47	2	2	46	1.31
570560--570606	24	2.0	24	83	8	60	53	0	0	46	1.00
570559--570633	30	2.5	31	87	12	111	50	0	0	49	1.00
570561--570645	30	2.8	32	76	18	99	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572121--572168	16	3.0	16	87	6	71	37	22	6	33	1.80
572352--572408	16	3.6	17	79	15	59	28	1	28	42	1.66
577040--577098	29	2.0	29	86	0	82	20	20	15	44	1.87
577416--577644	60	3.8	59	84	8	268	31	21	5	40	1.77
577415--577658	119	2.0	120	83	6	309	31	22	5	40	1.77
579241--579291	21	2.4	21	80	0	57	31	35	17	15	1.92
579506--579565	22	2.7	22	73	12	61	60	0	1	38	1.07
580991--582955	4	492.5	4	96	0	2680	43	49	6	0	1.30
586536--586577	21	2.0	22	90	4	68	16	11	19	52	1.74
589900--589944	22	2.0	22	100	0	90	37	22	8	31	1.85
590006--590121	59	2.0	59	84	6	155	46	18	6	29	1.72
590002--590130	59	2.2	59	78	12	149	43	17	6	32	1.75
595220--595258	21	1.9	20	94	5	69	46	0	0	53	1.00
598261--598309	2	24.5	2	82	0	62	40	0	8	51	1.32
600238--600309	26	2.8	24	80	12	72	31	1	9	56	1.40
600535--600560	2	13.0	2	100	0	52	50	0	0	50	1.00
601337--601375	2	20.5	2	89	10	64	48	0	0	51	1.00
601335--601370	18	2.0	18	100	0	72	50	0	0	50	1.00
603368--603410	21	2.0	21	90	0	68	18	16	16	48	1.81
605944--605993	21	2.3	21	83	12	66	46	0	0	54	1.00
606952--606983	2	16.0	2	100	0	64	50	0	0	50	1.00
608440--608780	116	3.0	116	92	7	560	35	24	13	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608770--608874	3	35.3	3	98	1	203	0	65	0	34	0.93
608895--609170	145	1.9	145	99	0	543	39	20	15	23	1.91
609442--609498	30	1.9	30	100	0	114	3	38	8	49	1.51
615694--615755	32	2.0	32	96	3	117	14	14	9	61	1.57
617813--617850	20	1.9	20	88	0	58	71	10	15	2	1.25
617833--617880	12	3.9	12	83	10	53	70	12	12	4	1.29
617838--617875	11	3.4	11	89	7	58	71	10	13	5	1.30
619051--619120	4	18.0	4	94	5	126	50	25	0	24	1.50
619577--619808	99	2.3	97	81	10	254	32	19	12	35	1.89
619777--619870	33	2.8	34	81	1	118	34	19	12	34	1.89
620115--620213	26	3.6	27	91	5	155	29	11	15	44	1.80
620252--620354	52	2.0	53	92	1	172	33	14	16	35	1.89
620334--620542	30	6.7	29	66	24	97	31	11	13	43	1.79
620387--620570	37	5.3	37	66	26	143	30	13	11	44	1.79
620359--620590	67	3.5	67	95	3	402	30	12	12	44	1.80
620386--620660	67	4.2	64	89	6	261	30	12	12	44	1.80
620658--620711	29	2.0	26	82	10	63	29	14	9	46	1.76
620812--620977	66	2.5	66	77	9	155	30	16	11	41	1.83
621605--621685	28	2.9	27	87	7	117	24	14	14	45	1.83
621850--622039	40	4.5	40	68	19	127	26	31	20	22	1.98
621691--622053	134	2.8	131	82	6	396	26	33	19	20	1.97
622240--622288	3	16.7	3	82	4	64	32	4	2	61	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624688--624857	86	2.0	86	97	2	326	32	20	11	35	1.88
629123--629211	44	2.0	44	100	0	178	28	17	26	26	1.98
635083--635366	144	2.0	144	94	5	508	34	9	13	41	1.78
641485--641541	28	2.0	28	80	12	64	49	5	1	43	1.35
641663--641713	22	2.2	25	80	16	65	56	0	5	37	1.23
643114--643183	3	23.0	3	74	8	52	55	0	2	41	1.14
643114--643183	12	6.3	11	73	15	63	55	0	2	41	1.14
643405--644083	113	6.0	113	86	6	808	28	18	15	38	1.91
644482--644522	22	1.9	22	90	5	66	39	14	14	31	1.87
646857--647112	83	3.1	84	92	4	430	35	22	14	26	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14