genome.fa.s8985.2.7.7.80.10.50.1000.4.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: VEPZ01008985.1 Hibiscus syriacus cultivar Beakdansim tig00112349_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1528252

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 976 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)
502925--502979	20	2.8	20	94	0	101	25	32	16	25	1.96
505842--505866	9	2.8	9	100	0	50	12	32	12	44	1.78
506649--506742	46	2.0	46	97	0	179	36	18	6	39	1.76
512622--512731	43	2.6	43	85	5	134	34	16	20	28	1.94
514352--514511	65	2.5	65	86	5	209	26	19	23	30	1.98
514352--514561	65	3.3	63	80	12	205	26	19	23	30	1.98
516340--516394	21	2.6	21	97	0	101	30	0	43	25	1.55
517112--517192	23	3.7	23	77	8	96	23	22	25	28	1.99
517117--517211	44	2.2	42	88	7	138	24	20	26	29	1.99
517117--517211	21	4.4	21	76	9	86	24	20	26	29	1.99
522904--522964	20	2.9	21	87	7	79	18	26	34	21	1.96
526766--526808	20	2.2	20	83	8	52	37	4	2	55	1.33
530046--530122	23	3.3	23	75	1	82	33	18	19	28	1.95
530129--530346	103	2.1	103	95	0	391	37	23	13	26	1.91
531103--531129	2	13.5	2	100	0	54	51	0	0	48	1.00
536100--536250	65	2.3	65	82	9	168	28	17	23	29	1.97
537915--537964	15	3.6	15	77	22	56	70	0	4	26	1.05
538003--538045	18	2.4	18	88	0	59	72	2	4	20	1.14
538623--538666	19	2.2	21	88	8	65	54	15	0	29	1.42
538633--538753	63	1.9	63	88	6	183	55	14	0	29	1.40
538692--538729	19	2.0	19	89	0	58	47	15	0	36	1.46
542559--542602	12	3.4	14	82	17	51	70	0	2	27	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542559--542602	19	2.3	19	88	11	63	70	0	2	27	0.99
542644--542686	18	2.4	18	88	0	59	72	2	4	20	1.14
543277--543397	63	1.9	63	90	6	192	55	13	0	30	1.44
548194--548250	29	1.9	30	89	7	89	21	15	7	56	1.63
549799--549856	2	29.0	2	100	0	116	50	0	0	50	1.00
550118--550205	10	8.9	10	70	19	69	77	1	19	2	0.94
550118--550205	19	4.5	19	79	13	81	77	1	19	2	0.94
550117--550158	11	3.9	11	87	6	68	80	2	16	0	0.81
550117--550205	20	4.5	19	82	13	92	77	1	19	2	0.94
550117--550180	28	2.2	28	84	10	85	79	1	17	1	0.89
550116--550193	40	2.0	40	85	7	106	78	1	17	2	0.94
552141--552292	52	2.7	58	83	10	199	28	7	20	42	1.80
552329--552442	42	2.7	40	82	6	120	27	22	21	28	1.99
552506--552619	42	2.7	41	76	6	113	25	20	21	32	1.98
552299--552688	177	2.2	177	88	0	564	27	17	21	33	1.95
553553--554370	91	9.0	91	87	2	1015	39	16	20	23	1.91
554664--554718	26	2.1	26	93	0	92	40	0	3	56	1.17
558139--558210	37	1.9	37	86	5	101	51	19	9	19	1.74
558539--558694	39	4.0	39	84	3	215	32	24	27	16	1.96
563990--564061	38	1.9	37	85	2	99	54	15	8	22	1.67
564363--564480	39	3.0	39	82	4	148	34	23	25	16	1.95
566020--566574	159	3.5	158	84	5	612	28	16	6	48	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566762--566814	20	2.7	20	74	8	56	41	0	9	49	1.35
572838--572895	29	2.0	29	86	0	80	41	15	6	36	1.74
580440--580671	110	2.1	111	92	1	385	36	12	16	34	1.86
586656--586702	20	2.3	20	85	0	58	27	34	14	23	1.94
588166--588247	41	2.0	41	97	0	155	37	26	4	30	1.77
592088--592149	26	2.4	26	94	0	106	41	8	17	32	1.79
592995--594141	4	296.0	4	90	8	1849	25	0	25	49	1.50
594358--594420	2	31.5	2	100	0	126	50	0	0	49	1.00
595625--595665	2	20.5	2	100	0	82	51	0	0	48	1.00
595938--595964	2	13.5	2	100	0	54	51	0	0	48	1.00
596022--596249	4	57.8	4	97	2	435	25	0	24	50	1.50
599309--599459	60	2.5	59	80	7	153	32	21	5	40	1.76
599312--599496	60	3.1	60	78	8	148	32	21	4	41	1.74
600706--600760	20	2.8	20	75	10	67	38	14	16	30	1.89
602747--602824	22	3.6	21	77	16	63	76	3	1	17	1.00
603340--603364	2	12.5	2	100	0	50	52	0	0	48	1.00
603360--603385	13	2.0	13	100	0	52	76	0	0	23	0.78
603442--603523	13	6.5	13	71	18	57	63	1	7	28	1.28
604094--604198	37	2.8	37	85	2	140	28	15	14	41	1.86
604926--606388	106	14.0	106	88	5	2052	22	17	24	34	1.96
606012--606375	200	1.8	200	90	2	597	23	17	24	34	1.96
607216--607270	22	2.5	22	93	0	92	25	12	23	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607874--607947	28	2.8	24	75	20	76	1	8	8	82	0.90
607887--607948	15	4.6	14	77	20	62	0	8	8	83	0.80
607887--607950	26	2.6	24	82	9	76	0	7	7	84	0.78
607910--607950	11	3.7	11	93	0	64	0	7	7	85	0.75
611185--611222	19	2.1	19	90	5	60	71	0	21	7	1.11
612381--612414	6	5.7	6	92	0	59	82	0	14	2	0.79
612381--612415	18	1.9	18	100	0	70	80	0	14	5	0.89
612406--612449	22	2.0	23	86	13	65	79	4	2	13	0.98
612456--612498	13	3.3	13	83	6	52	58	0	2	39	1.11
612457--612497	15	2.5	17	88	7	59	56	0	2	41	1.13
612731--612768	2	19.5	2	94	5	69	52	0	0	47	1.00
612957--613029	2	36.5	2	100	0	146	50	0	0	49	1.00
613038--613084	11	4.2	11	86	5	58	68	4	6	21	1.30
613154--613198	12	3.4	13	82	14	56	66	0	4	28	1.11
613694--613798	37	2.8	37	82	0	129	32	13	13	40	1.83
618740--618787	17	2.7	17	81	9	51	56	4	8	31	1.48
618758--618800	19	2.3	19	92	4	70	65	4	6	23	1.37
620480--621501	106	9.7	106	94	0	1719	23	18	25	33	1.97
620480--621501	211	4.8	211	95	0	1733	23	18	25	33	1.97
633532--633576	20	2.3	20	88	11	67	64	4	8	22	1.40
639107--639167	19	3.4	19	67	28	60	32	16	4	45	1.68
639092--639183	35	2.6	35	92	1	157	30	19	4	45	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640894--640947	21	2.6	21	85	2	74	31	11	20	37	1.88
642056--642117	2	31.5	2	90	3	99	50	0	0	50	1.00
642054--642125	12	6.9	10	82	17	53	50	0	0	50	1.00
643687--643718	2	16.0	2	100	0	64	50	0	0	50	1.00
643837--643877	3	13.7	3	100	0	82	31	0	0	68	0.90
645622--645651	15	2.0	15	93	0	51	33	0	3	63	1.11
647921--648197	59	4.7	59	86	3	378	33	18	11	36	1.88
648534--648708	95	1.9	94	82	1	224	30	24	12	33	1.91
648534--648750	94	2.3	95	78	2	222	30	24	11	33	1.91
652922--652969	24	2.0	24	87	0	69	22	16	14	45	1.84
654869--655322	59	7.7	59	88	1	651	31	19	13	34	1.91
655652--655706	22	2.7	20	81	10	74	29	30	12	27	1.93
655653--655875	94	2.4	95	84	3	281	26	26	15	31	1.96
658708--658748	3	13.7	3	100	0	82	0	31	0	68	0.90
659283--659332	20	2.5	20	81	12	66	40	10	32	18	1.83
659979--660059	40	2.1	39	88	2	117	30	7	9	51	1.62
660953--660984	2	16.0	2	100	0	64	50	0	0	50	1.00
665016--665064	20	2.4	20	82	3	62	36	6	18	38	1.76
666328--666384	25	2.3	25	90	0	96	52	8	10	28	1.65
667472--667518	23	2.0	23	91	0	76	27	38	14	19	1.91
668014--668045	8	4.0	8	100	0	64	25	0	0	75	0.81
667917--668904	338	2.9	338	91	3	1518	43	7	4	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669343--669382	16	2.5	16	84	11	55	32	2	0	65	1.06
669649--669684	16	2.3	16	90	4	56	63	2	0	33	1.08
669683--669783	16	6.2	16	68	7	51	73	0	0	24	0.96
669711--669783	12	5.5	13	74	19	71	73	1	0	24	0.90
669682--669781	20	4.9	20	70	14	80	73	1	1	25	0.96
669675--669782	42	2.6	41	79	18	127	73	0	0	25	0.96
678004--678046	23	1.9	23	85	4	61	11	11	11	65	1.49
687009--687074	20	3.2	19	78	16	69	42	16	18	22	1.89
692159--692255	30	3.4	28	81	13	99	62	9	4	23	1.42
692214--692258	14	3.3	14	78	6	56	73	6	0	20	1.05

Tables:   1   2   3   4   5   6   7   8   9