genome.fa.s5853.2.7.7.80.10.50.1000.4.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: VEPZ01005853.1 Hibiscus syriacus cultivar Beakdansim tig00013738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  876857

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 590 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)
527925--527974	12	4.3	12	72	10	50	50	2	2	46	1.24
530471--531059	54	10.9	53	89	4	820	25	17	20	35	1.95
530576--530661	27	3.2	27	63	18	70	25	17	20	36	1.95
530765--530850	27	3.2	27	62	28	65	25	19	17	37	1.94
532810--532873	23	2.7	23	80	2	74	28	17	14	40	1.88
534498--534622	66	1.9	66	84	0	169	31	16	39	12	1.87
536718--536759	21	2.0	21	86	4	59	50	2	4	42	1.36
538907--539089	91	2.0	91	90	0	285	20	27	22	28	1.99
539862--539919	28	2.1	27	83	3	71	60	13	15	10	1.59
543285--543467	91	2.0	91	89	2	278	20	26	22	30	1.98
550001--550048	2	24.0	2	91	8	80	2	50	0	47	1.12
552152--552181	6	5.0	6	100	0	60	16	50	0	33	1.46
558092--558127	15	2.4	15	85	0	54	77	2	0	19	0.88
558098--558135	19	2.0	19	85	10	51	73	2	0	23	0.95
565671--565713	2	21.5	2	90	9	70	48	0	2	48	1.14
565767--565797	2	15.5	2	100	0	62	51	0	0	48	1.00
565962--566024	13	4.9	12	82	5	54	31	14	19	34	1.91
565817--565980	85	1.9	85	81	4	197	29	17	19	32	1.95
565962--566024	26	2.4	25	79	7	72	31	14	19	34	1.91
566148--566219	21	3.2	21	64	21	56	22	12	34	30	1.91
566157--566228	22	3.2	22	64	21	58	23	13	33	29	1.93
566150--566334	93	2.0	88	86	5	253	25	14	30	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566150--566334	46	4.1	46	87	4	261	25	14	30	29	1.95
572882--572927	15	3.1	15	87	6	58	80	8	0	10	0.91
578051--578081	15	2.1	14	94	5	53	6	32	0	61	1.21
578558--578678	64	1.9	63	81	5	145	33	21	19	26	1.97
579543--579616	23	3.3	22	81	7	87	25	24	21	28	1.99
583637--583667	15	2.1	14	94	5	53	6	32	0	61	1.21
585138--585203	23	2.9	23	83	0	87	25	25	21	27	1.99
587654--587711	25	2.3	25	90	0	89	22	18	24	34	1.96
587654--587725	25	2.9	24	85	6	74	23	19	25	31	1.98
589984--590029	22	2.0	23	83	4	58	32	2	30	34	1.70
590665--591080	202	2.1	199	95	3	744	28	17	12	40	1.86
599228--599278	24	2.1	24	100	0	102	39	3	23	33	1.73
599571--599696	31	4.0	33	78	11	131	26	19	21	33	1.97
600864--600908	20	2.2	20	96	0	81	68	11	0	20	1.19
602332--602405	20	3.7	20	85	7	114	28	31	14	25	1.95
602392--602524	20	6.6	21	69	17	79	36	24	18	21	1.94
602345--602445	40	2.5	41	82	4	107	29	27	14	27	1.96
602429--602532	40	2.6	40	79	15	126	41	24	17	17	1.90
602429--602532	20	5.2	20	75	15	108	41	24	17	17	1.90
602662--602703	22	1.9	22	90	0	66	30	35	11	21	1.90
602914--602947	13	2.6	13	95	0	59	0	5	11	82	0.83
605064--605155	21	4.6	21	70	10	66	22	31	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605073--605468	200	2.0	196	96	2	720	20	27	23	28	1.99
606779--606818	14	2.9	14	80	0	53	30	0	17	52	1.45
606729--606868	66	2.2	62	86	7	185	30	0	17	51	1.50
606928--606965	20	1.9	20	88	0	58	44	26	13	15	1.83
606990--607058	34	2.0	34	86	10	97	18	21	20	39	1.93
607238--607320	39	2.1	39	95	0	148	16	15	21	45	1.85
607634--607670	18	2.1	18	89	0	56	51	10	5	32	1.60
607917--607970	23	2.3	23	78	6	56	53	18	0	27	1.45
608057--608106	25	2.0	25	88	0	73	46	20	8	26	1.78
608559--608593	6	5.8	6	86	0	52	17	2	20	60	1.49
610841--610894	24	2.2	24	90	0	81	42	20	16	20	1.89
611791--611852	18	3.4	19	82	10	76	29	11	22	37	1.89
611814--611863	18	2.7	18	87	9	57	34	12	16	38	1.85
622650--622708	30	2.0	30	83	6	77	52	0	0	47	1.00
622670--622704	13	2.7	13	86	0	52	48	0	0	51	1.00
626862--626936	39	2.0	36	87	10	107	52	10	14	22	1.73
629840--629900	31	2.0	31	90	0	95	36	18	18	27	1.94
632317--632376	25	2.3	25	82	5	75	58	6	3	31	1.40
633240--633354	27	4.1	27	73	13	81	50	2	6	40	1.43
633485--633538	28	1.9	28	88	0	81	53	1	5	38	1.35
634727--635311	55	10.6	54	88	2	276	34	19	12	33	1.89
634787--635325	166	3.3	163	88	2	783	34	18	12	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634787--635325	111	4.9	110	88	2	789	34	18	12	34	1.88
638974--639157	5	37.2	5	69	21	113	53	2	1	41	1.25
638978--639157	14	13.5	13	74	16	138	53	2	1	42	1.25
638981--639157	19	9.4	19	73	19	108	53	2	1	42	1.25
639069--639160	2	51.0	2	76	20	96	51	0	2	46	1.13
638974--639160	9	21.0	9	71	20	126	53	2	1	42	1.24
639599--639786	98	1.9	98	93	0	322	26	18	20	35	1.95
639757--640288	201	2.6	200	84	3	701	28	19	17	34	1.95
642277--642370	24	4.0	24	81	1	109	20	22	25	31	1.98
643965--644022	27	2.1	27	93	0	98	13	24	17	44	1.85
646306--646744	216	2.0	217	99	0	871	32	14	30	23	1.94
647563--647610	23	2.1	23	88	7	71	37	6	8	47	1.59
650662--650763	31	3.4	30	82	6	127	34	11	12	41	1.80
650843--650948	30	3.6	30	82	5	126	42	12	7	37	1.71
650812--650981	59	2.8	58	74	17	141	43	9	9	37	1.69
650983--651017	18	1.9	19	88	11	56	28	14	2	54	1.54
652373--652495	49	2.5	50	85	5	162	28	12	13	46	1.78
655270--655314	18	2.5	18	96	0	81	48	4	8	37	1.55
662474--662515	21	2.0	22	95	4	77	45	19	16	19	1.86
663653--663690	20	1.9	20	88	0	58	21	26	10	42	1.85
663835--663936	31	3.3	31	71	10	91	34	16	17	31	1.93
663811--663931	62	1.9	62	85	8	165	31	20	18	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
663845--663931	32	2.8	31	75	8	95	31	19	18	31	1.96
664168--664209	22	1.9	22	85	0	57	38	16	7	38	1.76
664617--664672	22	2.7	20	89	10	94	25	28	17	28	1.98
665195--665225	3	10.3	3	100	0	62	64	0	35	0	0.94
667139--667203	6	10.8	6	100	0	130	32	0	50	16	1.46
671115--671215	37	2.7	37	89	0	139	43	12	12	30	1.81
671752--671804	2	26.5	2	100	0	106	50	0	0	49	1.00
676563--676627	29	2.2	28	79	15	69	80	6	13	0	0.90
676560--676638	25	3.1	26	79	18	78	78	7	12	1	1.01
676565--676640	18	3.9	18	80	14	73	78	6	13	1	0.99
676557--676627	30	2.4	31	79	11	85	78	7	14	0	0.94
676564--676640	20	3.9	19	79	14	77	79	6	12	1	0.99
678248--678976	106	6.9	106	92	1	1221	34	24	17	23	1.96
678683--679242	266	2.1	269	89	4	842	33	23	18	24	1.97
678577--679344	372	2.0	374	91	2	1245	33	24	18	23	1.96
679027--679359	106	3.1	106	92	0	542	33	23	19	23	1.97
680090--680194	37	2.8	37	88	0	156	40	15	15	29	1.88
681023--681051	2	14.5	2	100	0	58	48	0	0	51	1.00
681072--681112	15	2.6	16	81	14	50	14	7	0	78	0.96
681072--681132	25	2.4	26	81	8	72	14	9	0	75	1.04
683016--683046	5	6.0	5	96	3	53	41	58	0	0	0.98
686722--686777	24	2.3	24	100	0	112	28	17	16	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
687035--687073	20	2.0	20	90	10	62	5	28	23	43	1.75
688995--689024	2	15.0	2	100	0	60	50	0	0	50	1.00
689086--689110	4	6.2	4	100	0	50	24	0	0	76	0.80
690049--690085	18	2.1	18	100	0	74	27	5	35	32	1.79
696062--696119	14	4.3	14	77	16	59	44	5	0	50	1.24
696059--696120	12	4.8	12	70	14	52	43	6	0	50	1.28
700410--700466	21	2.7	21	97	0	105	28	35	22	14	1.93
700334--700540	95	2.2	95	85	3	272	24	31	25	18	1.98
706268--706327	23	2.9	19	85	12	66	21	33	26	18	1.96
708930--709137	75	2.8	75	86	2	265	24	30	23	21	1.99

Tables:   1   2   3   4   5