genome.fa.s1484.2.7.7.80.10.50.1000.3.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: VEPZ01001484.1 Hibiscus syriacus cultivar Beakdansim tig00002880_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1039362

Tables:   1   2   3   4   

This is table  3  of  4  ( 472 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)
563775--563884	3	36.7	3	83	0	94	46	33	20	0	1.51
563775--563886	6	19.2	6	83	5	104	46	33	19	0	1.50
569081--569146	29	2.3	29	97	0	123	27	25	6	40	1.79
569816--569885	14	5.3	14	68	13	58	55	20	15	8	1.66
569813--569955	24	5.8	24	75	11	103	57	16	13	11	1.65
569815--569899	38	2.2	38	93	0	143	56	20	15	8	1.64
569853--570001	23	6.3	23	79	6	138	57	16	12	13	1.66
570188--570259	24	3.0	24	89	0	108	54	19	12	13	1.71
570188--570228	14	3.2	14	74	25	54	56	14	12	17	1.68
570206--570254	14	3.8	14	71	20	52	55	20	12	12	1.68
574266--574308	21	2.0	21	86	0	59	30	27	25	16	1.97
574287--574397	47	2.4	47	89	1	161	30	25	22	21	1.99
574722--574793	29	2.5	29	93	0	117	38	9	12	38	1.76
575092--575150	22	2.6	23	94	2	102	18	27	30	23	1.98
580960--581000	21	2.0	21	85	0	55	29	29	24	17	1.97
580980--581127	65	2.2	67	89	4	221	28	26	27	18	1.98
581429--581499	28	2.5	29	93	2	117	38	9	12	39	1.77
581796--581876	22	3.6	22	94	1	135	19	27	28	24	1.99
586911--587009	33	3.1	33	88	2	139	37	23	15	24	1.93
588740--588870	62	2.1	62	97	0	244	50	13	12	23	1.75
589457--589813	178	2.0	178	100	0	714	32	32	13	21	1.92
591995--592054	29	2.1	29	96	0	111	23	20	16	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597861--597903	21	2.0	21	90	0	68	13	27	37	20	1.91
599324--599374	20	2.5	20	96	0	93	31	13	3	50	1.60
599336--599395	20	3.0	21	88	7	81	33	16	5	45	1.69
600981--601022	21	2.0	21	95	0	75	14	28	40	16	1.88
607177--607216	21	1.9	21	89	0	62	10	25	40	25	1.86
607197--607259	20	2.9	21	79	9	65	15	25	34	23	1.95
611066--611105	21	1.9	21	85	10	55	35	10	2	52	1.48
614463--614521	24	2.5	24	83	2	75	35	20	22	22	1.96
614509--614566	23	2.5	23	77	0	71	32	20	18	27	1.97
615936--615996	23	2.7	23	92	0	104	24	27	27	19	1.99
617673--617717	21	2.1	21	87	0	63	15	24	28	31	1.96
629881--629925	2	22.5	2	100	0	90	51	0	0	48	1.00
633349--633387	2	19.5	2	100	0	78	51	0	48	0	1.00
635074--635216	6	24.2	6	97	2	272	32	0	0	67	0.91
636153--636254	29	3.5	29	80	7	125	37	10	12	39	1.79
636247--636299	23	2.3	23	80	9	63	35	9	7	47	1.64
636262--636306	23	2.0	23	91	4	74	33	11	8	46	1.70
636632--636670	19	2.1	19	85	0	51	20	5	33	41	1.74
637279--637526	21	11.9	21	90	1	392	29	32	17	20	1.96
637283--637526	83	2.9	83	93	1	409	29	31	17	20	1.96
637279--637526	104	2.4	104	93	1	417	29	32	17	20	1.96
637956--638072	61	1.9	61	92	3	200	37	18	8	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640730--640813	45	1.9	45	87	4	127	35	5	9	48	1.60
641036--641060	3	8.3	3	100	0	50	68	32	0	0	0.90
646968--646996	2	14.5	2	100	0	58	48	0	0	51	1.00
648246--648279	15	2.1	15	89	10	50	14	11	0	73	1.10
649853--649885	14	2.4	14	100	0	66	48	9	6	36	1.60
650208--650269	18	3.7	16	78	17	72	77	8	14	0	0.98
650216--650263	20	2.3	21	86	13	73	79	6	14	0	0.92
651757--651835	34	2.3	34	100	0	158	29	30	16	24	1.96
651890--651996	36	3.0	36	94	0	178	25	22	14	37	1.93
653243--653516	106	2.6	106	88	1	401	32	23	18	25	1.97
652912--653698	394	2.0	393	93	0	1360	32	23	20	23	1.98
655237--655265	2	14.5	2	100	0	58	48	0	0	51	1.00
655290--655336	8	5.9	8	89	0	58	36	0	2	61	1.08
655292--655336	12	3.8	12	87	0	63	37	0	2	60	1.09
655165--655334	69	2.5	67	80	12	197	29	6	1	62	1.30
655236--655369	71	1.9	71	82	3	171	30	8	1	58	1.37
657874--657910	19	1.9	19	94	0	65	40	16	21	21	1.91
658163--658227	33	2.0	33	85	11	89	26	16	27	29	1.97
659742--659779	19	2.0	20	94	5	69	47	7	13	31	1.71
660883--660924	21	2.0	21	90	0	66	28	11	11	47	1.76
660885--660932	21	2.4	19	80	12	60	25	14	10	50	1.74
661146--661202	20	2.8	20	89	5	80	29	26	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661146--661210	20	3.2	20	86	6	69	30	23	18	27	1.97
674812--674844	14	2.3	15	89	5	50	6	24	9	60	1.49
679037--679085	15	3.3	15	88	0	62	24	38	8	28	1.84
680925--680974	16	3.1	15	78	13	55	24	2	4	70	1.15
684421--684504	34	2.5	33	81	12	91	60	15	2	21	1.46
684417--684493	34	2.2	34	84	11	95	59	18	1	20	1.44
690420--690462	17	2.6	16	82	10	50	46	2	4	46	1.36
705669--705990	20	16.2	20	84	5	404	33	26	19	21	1.97
706943--706986	2	22.5	2	93	4	72	47	2	0	50	1.13
707056--707386	165	2.0	166	99	0	655	28	16	23	31	1.96
710532--710585	21	2.6	21	82	11	58	24	3	1	70	1.13
716521--716575	28	2.0	27	92	3	92	30	7	12	49	1.68
717274--717330	3	18.7	3	96	3	105	33	0	0	66	0.92
718047--718079	12	2.8	12	86	13	50	39	6	27	27	1.80
718605--718664	27	2.2	28	80	14	72	60	1	3	35	1.23
723600--723769	75	2.3	75	85	7	222	31	12	21	34	1.91
724642--724805	54	2.9	57	79	7	160	39	12	18	29	1.87
725050--725099	22	2.3	22	85	0	64	36	16	8	40	1.77
725613--725771	79	2.0	80	95	1	284	32	16	14	37	1.89
725861--726064	45	4.4	45	85	4	264	25	24	20	30	1.98
725845--726019	94	1.9	94	88	0	269	26	24	18	31	1.97
725869--726064	94	2.1	92	85	3	261	25	24	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
726089--726240	45	3.3	44	88	4	196	24	25	19	30	1.98
725967--726186	122	1.8	122	90	0	359	25	23	19	31	1.98
725926--726352	167	2.6	165	92	1	694	24	24	20	30	1.98
726128--726593	121	3.9	121	90	1	702	24	22	20	32	1.98
726249--726352	45	2.3	45	89	0	154	25	25	19	29	1.98
726370--726457	45	2.0	45	83	0	113	25	22	18	34	1.96
726490--726680	45	4.3	45	89	3	280	25	21	18	34	1.96
726134--726593	241	1.9	241	90	1	742	24	22	20	32	1.98
726807--726879	3	23.7	3	88	2	101	35	0	1	63	1.04
727591--727628	12	3.1	12	82	17	51	34	7	34	23	1.84
728565--728598	9	3.9	9	84	7	52	44	0	0	55	0.99
736510--736568	27	2.2	27	81	0	64	55	1	3	38	1.26
737137--737165	14	2.0	15	93	6	51	37	0	0	62	0.96
737169--737226	26	2.3	26	76	11	66	46	1	0	51	1.11
737171--737266	42	2.2	43	85	7	124	45	2	0	52	1.12
737239--737313	22	3.2	22	70	26	55	45	4	1	49	1.29
737342--737404	29	2.1	29	91	5	99	55	1	0	42	1.09
739171--739207	18	2.1	18	90	5	58	51	0	8	40	1.32
739734--739766	16	2.1	16	88	5	50	30	0	12	57	1.35
744235--744293	31	1.9	31	93	3	102	42	6	6	44	1.57
744756--744816	18	3.2	20	78	19	60	62	0	1	36	1.05
744836--745014	23	7.8	23	99	0	349	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)
744836--745078	46	5.4	46	87	5	354	49	0	0	49	1.03
744836--745078	69	3.6	69	91	3	354	49	0	0	49	1.03
745067--745117	12	4.3	12	76	18	54	66	1	0	31	1.03
746027--746056	15	1.9	16	93	6	53	40	3	16	40	1.65
750024--750075	23	2.3	23	93	0	86	17	25	28	28	1.97
750024--750083	23	2.6	23	89	0	75	18	23	26	31	1.97
750395--750437	16	2.9	15	82	6	52	60	0	9	30	1.28
750393--750436	14	3.0	15	84	12	56	59	0	11	29	1.32
755262--755320	23	2.6	23	88	0	82	18	28	27	25	1.98
755279--755328	23	2.2	23	88	0	73	18	26	26	30	1.98

Tables:   1   2   3   4