genome.fa.s426.2.7.7.80.10.50.1000.3.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: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3165331

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1749 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)
476196--476389	40	4.8	39	84	3	217	35	26	18	19	1.95
476196--476388	60	3.2	60	83	3	253	35	26	18	19	1.95
476765--476833	32	2.2	32	94	0	120	11	23	18	46	1.82
476765--476814	18	3.0	18	69	22	54	12	24	20	44	1.85
476916--477025	21	5.8	20	74	17	108	45	18	24	11	1.83
476909--477025	41	3.1	38	81	14	145	46	17	25	11	1.81
476976--477032	14	3.7	14	75	20	60	43	22	24	8	1.81
476968--477048	33	2.5	33	95	0	144	46	22	22	8	1.78
477044--477171	19	7.1	19	71	19	87	11	24	18	45	1.83
477066--477122	14	3.7	14	75	20	60	8	24	22	43	1.81
477049--477171	33	3.5	33	88	10	165	11	23	18	46	1.81
477110--477170	20	3.0	21	78	4	79	13	22	16	47	1.81
477106--477161	21	2.8	20	81	5	67	14	25	17	42	1.87
478870--479245	93	4.1	93	98	0	727	21	12	19	46	1.83
479290--479417	19	7.3	18	75	19	119	47	28	15	8	1.75
479290--479417	33	3.7	33	84	9	150	47	28	15	8	1.75
479375--479401	14	1.9	14	100	0	54	48	29	14	7	1.71
479413--479585	19	9.6	19	75	12	141	12	19	23	45	1.83
479435--479487	14	3.4	14	75	22	52	9	22	22	45	1.81
479418--479510	33	2.8	33	90	0	141	12	20	20	46	1.83
481509--481546	14	2.7	14	95	0	67	36	0	21	42	1.53
481648--481742	19	5.2	19	82	13	128	45	16	22	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481648--481764	53	2.2	52	95	1	207	45	17	23	14	1.85
481760--481923	33	4.8	33	74	16	163	14	22	17	45	1.84
481811--481990	86	2.1	84	86	12	242	13	22	18	46	1.83
481792--481990	33	5.7	34	75	17	185	13	22	18	46	1.83
481754--481976	19	12.7	19	76	19	234	14	21	17	45	1.85
481754--481976	53	4.2	53	95	1	380	14	21	17	45	1.85
484452--484498	24	2.0	24	87	8	69	38	21	14	25	1.92
485186--485414	20	11.4	20	86	1	244	19	17	25	37	1.94
485382--485479	42	2.4	41	76	10	101	21	19	21	37	1.94
485935--485986	19	2.9	17	75	13	50	57	0	3	38	1.17
486903--486939	14	2.5	15	83	16	51	37	0	2	59	1.12
487780--487942	59	2.7	59	83	4	177	44	3	19	33	1.68
487831--487942	60	1.9	59	88	1	170	46	3	15	34	1.63
487840--487963	60	2.1	60	84	3	160	49	3	14	33	1.60
488754--488779	12	2.2	12	100	0	52	46	23	0	30	1.53
489702--489766	31	2.0	33	82	5	80	21	21	30	26	1.98
494800--494824	6	4.2	6	100	0	50	36	32	0	32	1.58
496170--496202	17	2.0	17	94	5	59	21	36	0	42	1.53
497510--497574	30	2.1	31	86	8	89	64	1	18	15	1.37
499343--499373	15	2.1	15	93	0	53	12	35	29	22	1.91
517019--517063	24	1.9	23	90	4	72	6	15	26	51	1.68
522822--522889	32	2.1	31	84	10	84	44	5	5	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522994--523032	18	2.2	18	86	9	53	23	15	0	61	1.33
528141--529042	106	8.5	106	96	0	1599	34	24	18	23	1.96
529818--530023	111	1.9	110	82	10	260	47	5	5	41	1.52
529957--530024	32	2.1	32	84	10	86	44	5	5	44	1.52
530129--530167	18	2.2	18	86	9	53	23	15	0	61	1.33
536100--536126	11	2.5	11	100	0	54	48	11	25	14	1.77
536760--537149	184	2.1	183	90	1	602	46	8	2	43	1.47
537081--537138	20	2.9	20	76	7	55	44	1	1	51	1.21
543816--543878	13	4.5	13	78	18	72	15	44	22	17	1.86
543794--543839	18	2.6	18	96	0	83	19	52	15	13	1.75
543798--543878	31	2.6	31	88	0	117	17	45	19	17	1.85
543834--543905	8	9.4	8	74	19	73	15	37	25	22	1.93
543833--543867	18	1.9	18	94	0	61	17	42	22	17	1.88
543868--543905	7	5.1	7	90	9	58	13	34	26	26	1.93
543868--543905	15	2.5	15	100	0	76	13	34	26	26	1.93
552151--552214	22	2.9	22	81	4	76	26	29	25	18	1.98
560812--560860	2	24.5	2	100	0	98	48	0	0	51	1.00
562488--562536	2	24.5	2	100	0	98	51	0	0	48	1.00
562857--562926	22	3.1	22	81	6	79	25	20	21	32	1.97
562872--562931	22	2.7	22	92	0	102	21	23	21	33	1.97
565535--565586	2	26.0	2	100	0	104	50	0	0	50	1.00
567034--567085	28	1.9	26	84	7	68	61	13	0	25	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567881--567926	22	2.1	22	83	0	56	28	17	6	47	1.72
571186--571304	54	2.2	54	84	0	148	22	48	6	21	1.73
571458--572330	51	17.6	51	65	14	328	29	45	8	17	1.77
571512--572276	48	15.5	48	65	14	274	28	45	8	17	1.77
571242--572330	99	11.1	99	86	2	1270	29	44	8	17	1.78
571242--572330	296	3.7	296	85	2	1322	29	44	8	17	1.78
571245--572330	395	2.8	394	84	2	1323	29	44	8	17	1.78
573463--573551	36	2.5	36	77	3	99	26	40	8	23	1.84
573613--573704	36	2.6	36	87	3	123	27	43	9	19	1.82
573499--574196	150	4.6	150	89	3	941	30	42	8	17	1.79
573763--573855	36	2.6	36	84	3	107	34	45	4	16	1.67
573913--573998	36	2.4	36	90	3	129	32	45	6	15	1.72
574002--574134	48	2.8	47	84	1	167	34	42	8	14	1.75
574159--574835	48	13.9	48	69	11	313	29	46	4	19	1.69
573949--574296	162	2.1	162	84	5	434	32	44	6	16	1.72
574165--574344	99	1.8	99	83	4	238	30	47	3	17	1.66
574174--574673	147	3.4	147	86	1	703	31	46	4	18	1.69
574157--574829	96	6.9	95	70	12	353	29	47	4	19	1.68
574872--574918	18	2.6	18	100	0	94	25	51	0	23	1.49
574964--575088	48	2.6	48	79	5	135	23	56	0	20	1.43
588794--588877	41	2.1	39	84	4	105	35	21	16	26	1.94
589021--589053	17	1.9	17	93	0	57	33	21	18	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589518--589569	25	2.1	25	100	0	104	23	11	15	50	1.76
589847--589883	2	18.5	2	100	0	74	48	0	0	51	1.00
594626--594671	24	2.0	23	87	8	67	28	6	15	50	1.69
601120--601387	33	8.1	33	95	0	466	29	32	17	19	1.95
602095--602153	15	3.7	15	73	20	57	38	11	33	15	1.84
602092--602166	33	2.3	33	95	0	132	34	12	38	14	1.83
602110--602166	18	3.3	18	68	22	50	33	12	38	15	1.85
602816--602856	19	2.2	19	100	0	82	24	9	14	51	1.72
605923--605986	32	2.0	32	100	0	128	43	28	0	28	1.55
625042--625073	14	2.2	15	94	5	57	59	0	3	37	1.13
625039--625075	13	2.7	14	84	15	51	64	0	2	32	1.07
639899--639928	2	15.0	2	100	0	60	50	0	0	50	1.00
640343--640383	13	3.2	13	78	0	55	63	2	12	21	1.40
643867--643907	21	1.9	21	85	5	55	34	9	21	34	1.87
644779--644826	17	2.8	17	100	0	96	22	16	29	31	1.96
652631--652660	15	1.9	16	93	6	53	53	6	6	33	1.53
664727--664764	19	2.0	19	100	0	76	21	26	10	42	1.85
671697--671749	18	2.9	18	80	0	61	15	43	1	39	1.57
671703--671755	18	2.9	18	80	0	61	16	43	3	35	1.67
678137--678199	23	2.5	27	72	20	71	30	11	9	49	1.70
679834--679868	16	2.3	16	90	9	56	48	0	0	51	1.00
687477--687525	23	2.1	24	84	3	64	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
687477--687524	22	2.1	24	88	7	73	45	0	0	54	0.99
690511--690568	23	2.4	24	78	21	68	24	13	13	48	1.79
691972--691997	13	2.0	13	100	0	52	23	23	15	38	1.92
694226--694264	11	3.5	11	86	10	53	64	17	0	17	1.30
695951--695983	16	2.1	16	94	0	57	54	21	3	21	1.58
703724--703766	20	2.1	20	86	4	59	62	0	16	20	1.32
704772--704880	5	21.0	5	74	13	71	58	4	0	35	1.25
704764--704869	40	2.6	40	81	14	103	57	4	0	36	1.26
704802--704880	26	3.2	26	75	10	94	58	5	0	36	1.20
704765--704876	35	3.1	34	80	13	102	58	4	0	36	1.25

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15