genome.fa.s1711.2.7.7.80.10.50.1000.2.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: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4148933

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

This is table  2  of  13  ( 1546 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)
340170--340222	23	2.3	23	86	0	79	66	9	15	9	1.45
340170--340228	23	2.6	23	81	5	75	66	8	16	8	1.43
342763--342846	28	3.0	28	94	0	141	26	16	11	45	1.82
344413--344467	23	2.4	23	93	0	92	65	5	7	21	1.38
344413--344478	23	2.8	22	82	11	78	60	6	10	22	1.51
348617--348665	19	2.4	21	90	10	75	55	10	14	20	1.68
349198--349281	28	3.0	28	89	0	132	26	16	13	44	1.84
363763--364336	286	2.0	286	98	0	1112	25	21	13	39	1.90
366710--366752	23	1.9	22	81	13	52	76	2	16	4	1.05
373441--373472	13	2.5	13	95	5	57	40	0	31	28	1.57
374096--374329	117	2.0	118	86	5	332	31	14	23	30	1.94
380935--382067	567	2.0	568	97	0	2142	24	18	24	31	1.98
390448--390533	13	7.2	12	72	22	58	29	3	37	30	1.74
390430--390534	36	2.9	36	94	1	176	29	4	36	29	1.78
394007--394045	14	2.8	14	81	14	53	0	17	2	79	0.84
393989--394045	28	2.0	28	86	13	80	1	17	5	75	1.07
394460--394542	34	2.4	34	90	6	123	28	6	37	27	1.81
398008--398063	28	2.0	28	89	6	87	1	16	5	76	1.05
398026--398066	17	2.3	18	91	4	66	0	19	2	78	0.87
398018--398079	28	2.2	29	82	8	74	1	16	6	75	1.08
398476--398558	34	2.4	34	90	6	123	28	6	37	27	1.81
402042--402080	14	2.8	14	81	14	53	0	17	2	79	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402024--402098	28	2.6	27	83	14	80	1	16	8	74	1.11
402493--402575	34	2.4	34	90	6	123	28	6	37	27	1.81
405126--405174	18	2.7	18	87	9	64	2	12	6	79	0.99
407907--407934	10	2.8	10	100	0	56	39	10	21	28	1.87
410476--410514	16	2.4	16	86	0	51	64	0	20	15	1.30
411644--411700	10	5.6	10	79	4	69	84	10	5	0	0.77
411653--411707	26	2.2	25	83	6	67	78	14	7	0	0.96
422903--422973	35	2.0	37	91	5	119	32	4	32	30	1.77
424658--424695	16	2.4	16	90	0	58	65	5	15	13	1.43
438205--438259	21	2.6	21	85	0	74	0	9	14	76	1.02
438232--438261	12	2.4	12	94	5	51	0	10	6	83	0.81
452576--452612	19	2.0	19	89	5	58	0	10	5	83	0.79
454534--454618	11	7.2	11	72	22	66	31	36	3	28	1.74
454531--454635	36	2.9	36	95	1	185	30	36	4	28	1.78
455082--455128	14	3.1	15	75	12	51	72	6	19	2	1.17
458981--459065	11	7.2	11	72	22	66	31	36	3	28	1.74
458978--459082	36	2.9	36	95	1	185	30	36	4	28	1.78
463606--463658	23	2.2	24	90	3	81	9	16	11	62	1.54
468975--469012	11	3.5	11	92	0	58	86	10	2	0	0.66
468974--469030	20	2.8	19	76	10	60	84	10	1	3	0.82
468975--469030	10	5.5	10	78	16	53	85	8	1	3	0.78
468983--469056	28	2.7	27	80	10	80	77	12	4	6	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479827--479860	16	2.1	17	89	10	54	11	23	0	64	1.26
480333--480481	36	4.2	36	81	4	178	36	3	31	28	1.74
480334--480481	71	2.1	71	91	2	235	35	3	31	29	1.74
485419--485503	11	7.2	11	72	22	66	31	36	3	28	1.74
485416--485520	36	2.9	36	94	1	176	29	36	4	29	1.78
491713--491753	6	6.7	6	83	5	55	0	17	2	80	0.82
491713--491753	19	2.2	18	86	4	55	0	17	2	80	0.82
491910--491973	33	2.0	32	82	14	78	60	0	26	12	1.32
492122--492249	36	3.6	35	81	3	166	36	3	32	27	1.75
495060--495099	21	2.0	21	85	14	57	32	10	2	55	1.47
496138--496189	21	2.6	21	90	6	81	34	13	5	46	1.67
496895--496960	18	3.6	18	72	11	53	75	4	13	6	1.14
506026--506083	25	2.3	25	93	0	107	25	31	3	39	1.73
506320--506365	22	2.1	22	100	0	92	23	23	8	43	1.82
507270--507311	15	2.7	15	88	3	66	19	33	4	42	1.72
516655--516694	21	2.0	21	85	14	57	32	10	2	55	1.47
517746--517851	36	3.0	36	91	1	169	31	3	35	29	1.75
521762--521800	14	2.8	14	81	14	53	0	17	2	79	0.84
521744--521800	28	2.0	28	86	13	80	1	17	5	75	1.07
522027--522057	15	2.1	15	93	0	53	54	0	29	16	1.42
522197--522264	35	1.9	36	93	3	120	29	2	36	30	1.72
531035--531083	19	2.5	20	93	3	82	46	6	12	34	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544194--544232	16	2.4	16	86	0	51	64	0	20	15	1.30
544432--544477	16	3.0	15	81	15	58	4	13	0	82	0.81
545201--545261	22	2.8	22	94	0	104	44	4	8	42	1.55
548653--548691	16	2.4	16	86	0	51	64	0	20	15	1.30
548893--548943	5	10.0	5	78	19	52	1	15	0	82	0.76
548893--548943	24	2.2	24	82	6	61	1	15	0	82	0.76
548894--548944	16	3.2	16	86	8	77	1	13	0	84	0.71
549669--549721	19	2.6	20	88	8	72	43	5	13	37	1.67
550223--550282	30	2.0	31	86	3	86	28	8	10	53	1.63
552933--552961	15	1.9	15	100	0	58	48	0	17	34	1.47
569841--569898	24	2.5	22	72	25	55	6	17	10	65	1.44
581824--581876	23	2.2	24	90	3	81	9	16	11	62	1.54
583656--583707	19	2.6	21	87	6	72	46	5	11	36	1.64
584729--584808	35	2.2	37	88	4	119	27	3	38	30	1.74
588322--588405	11	7.1	11	71	23	64	32	35	3	28	1.74
588322--588422	36	2.8	36	93	1	168	30	35	3	29	1.76
588799--588873	28	2.6	27	81	14	80	74	8	16	1	1.11
588817--588872	14	3.9	14	77	17	53	76	5	16	1	1.05
590945--590996	21	2.6	21	87	6	72	36	13	5	44	1.68
591406--591456	23	2.2	23	83	13	61	23	9	0	66	1.21
591714--591761	17	2.9	17	84	12	64	72	6	14	6	1.24
591987--592041	24	2.3	24	96	0	101	10	34	0	54	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595119--595170	21	2.6	21	90	6	81	34	13	5	46	1.67
598786--598870	11	7.2	11	72	22	66	31	36	3	28	1.74
598783--598886	36	2.9	36	94	1	174	28	36	4	29	1.78
607182--608315	568	2.0	568	97	0	2151	31	25	18	24	1.98
614996--615060	24	2.7	24	73	21	64	30	18	13	36	1.90
616219--616261	23	1.9	22	81	13	52	4	16	2	76	1.05
624500--624612	36	3.2	36	91	3	167	33	35	3	27	1.74
624533--624598	13	5.5	11	74	22	62	33	34	3	28	1.73
624501--624627	36	3.6	33	84	11	105	32	36	3	28	1.73
628886--628998	36	3.2	36	91	3	167	33	35	3	27	1.74
628919--628984	13	5.5	11	74	22	62	33	34	3	28	1.73
628887--629013	36	3.6	33	84	11	105	32	36	3	28	1.73
634729--634771	23	1.9	21	81	13	50	32	18	13	34	1.90
639587--639669	28	3.0	28	94	1	141	44	12	16	26	1.83
642212--642264	23	2.2	24	90	3	81	9	16	11	62	1.54
650550--650605	11	5.3	11	79	14	64	0	8	14	76	1.00
650558--650606	20	2.4	21	89	3	73	0	8	14	77	0.98
659794--659857	19	3.3	20	85	10	73	3	18	3	75	1.08
667996--668055	19	3.2	19	88	6	79	75	3	18	3	1.09
679799--679852	23	2.3	25	87	12	87	61	11	16	11	1.57
679803--679851	24	2.1	22	92	7	80	59	12	16	12	1.62
682394--682455	29	2.2	28	94	2	106	27	17	11	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
682621--682705	11	7.2	11	72	22	66	31	37	2	28	1.70
682619--682722	36	2.9	36	95	1	183	30	37	2	28	1.72
683330--683381	16	3.3	15	77	17	52	15	17	0	67	1.24
686708--686761	22	2.4	23	87	3	74	33	37	3	25	1.74
695443--695547	36	2.9	36	90	1	158	30	37	3	28	1.75
695501--695547	22	2.0	24	84	8	62	34	36	0	29	1.58
703649--703702	22	2.4	22	87	3	72	25	3	37	33	1.74
703669--703739	36	2.0	36	97	0	133	26	4	38	30	1.76
709514--709601	13	7.3	12	72	23	62	29	3	36	30	1.74
709496--709599	36	2.9	36	95	1	183	28	3	36	30	1.75

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