genome.fa.s8670.2.7.7.80.10.50.1000.3.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: VEPZ01008670.1 Hibiscus syriacus cultivar Beakdansim tig00111678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  969061

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 515 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)
481448--481495	20	2.4	20	100	0	96	8	18	33	39	1.81
481525--481602	3	25.7	3	87	12	115	67	0	0	32	0.90
481525--481597	27	2.7	27	93	2	128	68	0	0	31	0.90
484193--484269	12	6.5	12	76	15	72	45	2	1	50	1.23
485456--485495	2	20.0	2	100	0	80	50	0	0	50	1.00
485598--485718	15	8.1	15	68	18	51	24	4	3	67	1.23
485581--485663	28	3.0	28	83	11	93	22	6	3	67	1.29
485604--485695	30	3.2	30	79	13	95	23	5	2	68	1.22
485728--485770	21	2.1	20	83	12	52	16	11	2	69	1.28
485910--486011	14	7.5	13	71	17	57	14	6	2	75	1.13
485911--485973	20	2.9	22	77	15	69	12	3	4	79	1.01
485909--485984	36	2.1	36	80	9	84	14	5	3	76	1.11
489730--489769	21	1.9	21	89	0	62	45	5	27	22	1.73
497190--497535	110	3.2	110	84	2	423	36	20	17	25	1.94
497502--498161	253	2.6	254	86	2	909	32	24	17	25	1.97
498540--498624	2	44.5	2	82	13	108	48	1	0	50	1.08
499937--500011	28	2.7	27	78	15	66	25	5	2	66	1.26
499921--499996	40	1.9	40	82	15	95	27	5	2	64	1.28
499970--500035	27	2.4	26	82	10	69	22	7	4	65	1.37
500024--500086	15	4.2	15	75	15	67	26	3	1	68	1.14
500023--500164	65	2.1	69	79	12	152	21	6	2	69	1.21
500111--500167	23	2.7	20	74	15	51	17	10	1	70	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500171--500260	34	2.5	34	76	18	85	20	7	6	65	1.41
500303--500340	19	2.0	20	89	5	60	10	2	5	81	0.94
500888--500947	24	2.5	24	97	0	111	28	20	13	38	1.90
510013--510079	3	23.0	3	88	11	104	68	0	1	29	0.98
515035--515149	57	2.0	57	98	0	221	32	28	18	20	1.96
531821--531871	2	25.5	2	100	0	102	50	0	0	49	1.00
533351--533377	2	13.5	2	100	0	54	51	0	0	48	1.00
540848--540902	28	2.0	28	96	0	101	49	12	3	34	1.59
540854--540929	28	2.7	28	78	13	77	50	7	7	34	1.61
541702--541740	17	2.3	17	100	0	78	20	23	12	43	1.86
543296--543327	3	10.7	3	100	0	64	65	0	0	34	0.93
543565--543614	24	2.0	25	92	3	84	30	26	22	22	1.99
543801--543871	31	2.3	31	90	2	108	33	25	2	38	1.71
544173--544230	20	2.6	22	79	20	68	22	25	20	31	1.98
544211--544374	63	2.6	63	83	1	186	26	21	20	32	1.97
547933--548276	172	2.0	172	100	0	688	28	26	11	33	1.91
550485--550556	3	24.3	3	72	13	60	59	0	0	40	0.97
550863--551298	241	1.8	236	92	4	732	26	18	15	39	1.90
550863--551298	122	3.7	122	91	5	682	26	18	15	39	1.90
550863--551539	112	5.9	111	83	9	569	27	18	15	38	1.91
552684--552718	18	1.9	18	100	0	70	57	5	5	31	1.46
553055--553130	28	2.8	26	80	7	80	7	17	0	75	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553093--553132	16	2.6	16	96	4	73	5	15	0	80	0.88
553055--553134	27	2.9	27	81	7	90	8	17	0	73	1.07
561864--561893	15	2.1	15	93	6	53	33	26	6	33	1.83
563531--563561	2	16.0	2	93	6	55	51	0	0	48	1.00
564170--564205	19	1.9	19	88	5	56	55	0	2	41	1.14
565747--565815	3	24.7	3	80	14	76	66	0	0	33	0.92
565751--565815	8	7.9	8	78	11	60	67	0	0	32	0.91
565751--565815	17	3.9	17	78	4	62	67	0	0	32	0.91
565748--565815	20	3.3	20	77	6	75	67	0	0	32	0.91
569626--569695	29	2.4	29	90	4	106	32	25	2	38	1.71
570037--570195	63	2.5	63	84	4	196	26	21	20	32	1.97
571639--571691	22	2.4	22	93	0	88	13	22	30	33	1.92
578548--578582	18	1.9	18	88	0	52	20	17	34	28	1.95
583015--583173	64	2.5	64	83	2	185	33	20	17	27	1.95
583747--583819	18	3.9	18	78	7	92	23	16	31	28	1.96
583744--583820	38	2.0	38	89	0	118	24	16	29	28	1.97
587730--587773	21	2.2	20	83	4	52	45	9	11	34	1.72
587735--587781	21	2.2	21	81	7	51	46	8	12	31	1.72
589573--589636	2	32.0	2	100	0	128	50	0	50	0	1.00
596274--596305	15	2.1	15	100	0	64	40	18	6	34	1.76
598025--598635	211	2.9	209	81	2	695	31	15	19	34	1.93
610572--610641	34	2.1	32	84	5	86	24	28	15	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610924--610965	21	2.0	21	90	0	66	26	26	21	26	1.99
612600--612647	19	2.5	20	82	3	62	29	12	6	52	1.63
613500--613569	34	2.1	32	84	5	86	24	28	15	31	1.96
613784--613823	21	1.9	21	85	10	55	15	10	35	40	1.80
613852--613893	21	2.0	21	95	0	75	26	28	21	23	1.99
614006--614045	21	1.9	21	100	0	80	15	30	35	20	1.93
623270--623399	47	2.8	48	80	3	156	23	10	4	61	1.46
625385--625455	31	2.3	31	87	0	106	49	12	8	29	1.70
629357--629510	31	5.0	31	89	4	233	39	22	17	20	1.92
629357--629510	60	2.5	62	87	6	224	39	22	17	20	1.92
633536--633691	31	5.0	31	94	1	260	37	23	19	19	1.94
639341--639383	19	2.3	18	78	17	52	72	0	0	27	0.85
639351--639383	14	2.4	14	94	0	57	69	0	0	30	0.88
639340--639385	23	2.0	23	87	8	67	69	0	0	30	0.89
641245--641269	13	1.9	13	100	0	50	44	16	16	24	1.86
642746--642800	27	2.0	29	82	7	69	38	12	5	43	1.66
644482--644555	4	18.8	4	78	10	73	78	1	2	17	0.94
644482--644606	16	7.9	15	72	17	78	76	0	5	17	1.03
644533--644621	47	1.9	46	86	6	126	75	0	7	16	1.03
644533--644634	47	2.2	47	82	8	120	74	1	8	14	1.14
644653--644739	39	2.2	39	82	12	97	77	1	8	13	1.05
644701--644748	20	2.3	22	82	10	64	75	0	14	10	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646613--646648	14	2.5	14	90	4	54	25	11	0	63	1.27
652749--652784	14	2.5	14	90	4	54	25	11	0	63	1.27
659182--660306	216	5.3	216	92	2	1903	50	8	12	28	1.70
659182--660306	431	2.6	424	93	1	1914	50	8	12	28	1.70
660388--660466	2	40.0	2	80	12	92	49	1	1	48	1.17
660389--660463	39	1.9	39	94	0	132	49	1	1	48	1.18
660757--660810	11	5.2	11	76	17	53	51	11	1	35	1.48
660804--660907	33	3.2	32	68	15	86	45	8	6	39	1.61
660838--660883	9	5.4	9	79	10	53	52	6	2	39	1.40
660807--660927	24	5.2	24	67	19	71	42	8	8	40	1.65
660968--661058	33	2.7	33	89	5	137	39	7	4	48	1.52
661042--661189	18	7.7	18	72	19	102	41	9	8	41	1.67
661030--661195	38	4.3	37	78	13	165	41	9	7	42	1.64
661252--661614	7	57.7	6	65	23	58	44	6	4	44	1.50
661252--661614	9	43.2	8	65	22	58	44	6	4	44	1.50
661252--661614	20	18.0	20	65	22	104	44	6	4	44	1.50
661450--661763	33	9.8	33	76	15	311	44	6	6	42	1.56
661382--661632	138	1.8	137	84	10	341	45	6	4	43	1.51
661450--661632	69	2.7	71	82	11	238	44	6	5	43	1.51
661252--661614	2	173.0	2	63	24	58	44	6	4	44	1.50
661590--661802	58	3.8	58	86	8	307	43	7	7	41	1.61
661623--661776	25	5.8	25	72	20	116	44	7	7	41	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
662068--662207	61	2.3	60	85	3	181	51	7	7	33	1.58
662556--662769	101	2.1	104	87	7	321	30	30	6	32	1.83
662909--663103	6	32.8	6	79	2	160	44	43	4	7	1.53
663329--663490	31	5.2	31	93	0	279	27	5	19	46	1.72
663462--663690	63	3.6	63	89	0	323	31	10	17	40	1.83
665031--665078	23	2.1	23	100	0	96	25	20	27	27	1.99
665572--665607	18	2.1	17	89	5	54	55	8	0	36	1.30
665757--665795	16	2.4	16	86	0	51	33	17	25	23	1.96
665820--665885	25	2.5	26	81	11	82	22	19	22	34	1.96
680104--680151	21	2.3	21	82	10	64	68	2	2	27	1.11

Tables:   1   2   3   4   5