genome.fa.s8702.2.7.7.80.10.50.1000.3.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: VEPZ01008702.1 Hibiscus syriacus cultivar Beakdansim tig00111741_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3201804

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

This is table  3  of  14  ( 1641 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)
466270--466307	3	12.3	3	94	5	67	34	0	0	65	0.93
467833--467862	10	3.0	10	90	0	51	56	20	13	10	1.65
468053--468108	24	2.3	24	84	0	76	55	16	14	14	1.70
475715--475750	13	2.8	13	95	0	63	36	47	2	13	1.58
482639--482699	3	21.0	3	77	12	65	27	3	1	67	1.16
482645--482710	28	2.3	28	82	7	71	27	4	1	66	1.20
489901--489938	11	3.4	11	89	7	58	71	10	13	5	1.30
491124--491178	25	2.2	24	96	3	101	47	23	0	29	1.52
491601--491844	105	2.4	103	82	8	284	30	19	11	37	1.88
491790--491908	36	3.4	34	79	6	114	30	20	12	36	1.90
491808--491909	36	2.9	36	82	4	129	33	19	11	35	1.88
492015--492065	25	2.0	25	88	3	75	31	7	9	50	1.64
492065--492167	52	2.0	53	94	1	181	32	13	18	35	1.90
492155--492209	26	2.1	26	86	6	76	32	7	12	47	1.69
491988--492382	140	2.8	140	92	2	623	30	11	15	43	1.82
492298--492353	26	2.1	27	90	3	87	32	7	16	44	1.74
492315--492609	64	4.5	64	94	4	509	30	11	11	46	1.76
492324--492589	68	4.0	68	97	2	497	31	11	12	45	1.77
493121--493156	15	2.4	15	90	0	63	38	19	2	38	1.66
493632--494003	43	8.7	42	73	10	247	25	30	20	23	1.98
493673--494092	130	3.2	127	90	3	651	26	29	19	25	1.99
493642--494092	129	3.5	129	90	1	688	26	29	19	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494306--494366	3	21.0	3	77	12	65	27	3	1	67	1.16
494312--494377	28	2.3	28	82	7	71	27	4	1	66	1.20
499090--499115	2	13.0	2	100	0	52	50	0	0	50	1.00
502729--502787	20	2.9	19	87	9	82	16	25	25	32	1.97
502730--502819	10	9.3	10	71	17	66	15	26	27	30	1.96
502750--502817	19	3.5	20	86	9	81	16	25	29	29	1.96
502816--502863	5	8.8	5	78	17	51	18	52	22	6	1.68
502821--502884	12	5.3	12	79	11	60	18	43	23	14	1.86
502816--502863	22	2.2	22	96	0	87	18	52	22	6	1.68
502816--502863	17	2.9	15	84	12	51	18	52	22	6	1.68
502860--502890	7	4.4	7	95	0	53	19	29	25	25	1.99
503757--503880	63	2.0	63	82	6	153	16	28	29	25	1.97
510067--510186	10	12.3	9	77	11	96	15	25	27	32	1.95
510066--510161	21	4.8	21	79	7	103	15	23	27	33	1.95
510067--510186	19	6.2	19	80	14	95	15	25	27	32	1.95
510076--510161	29	2.8	31	87	8	124	15	24	26	33	1.95
510183--510247	5	11.8	5	75	18	58	18	50	23	7	1.72
510182--510254	17	4.3	17	86	10	105	17	47	23	10	1.79
510200--510247	22	2.2	22	96	0	87	18	52	22	6	1.68
510244--510288	7	6.4	7	100	0	90	15	28	28	26	1.96
512093--512121	15	1.9	15	100	0	58	62	17	0	20	1.33
514956--515010	23	2.4	22	82	14	58	36	9	1	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529039--529071	16	1.9	18	88	11	52	39	12	39	9	1.74
532026--532245	28	7.8	28	93	3	354	43	14	2	39	1.59
532233--532303	29	2.4	29	88	0	106	46	16	1	35	1.56
533270--533366	44	2.2	44	80	7	108	30	17	20	30	1.96
537300--537351	2	26.0	2	100	0	104	50	0	0	50	1.00
538335--538694	91	4.0	91	87	1	492	24	21	16	37	1.93
539027--539135	30	3.6	30	94	0	182	31	14	25	28	1.95
538990--539374	66	5.9	65	76	10	351	36	13	22	27	1.92
539017--539374	132	2.7	131	81	7	401	36	13	22	27	1.91
539316--539422	36	3.0	35	91	2	171	39	14	19	26	1.91
539611--539724	42	2.7	41	81	9	140	28	22	21	27	1.99
539760--539887	43	3.0	43	89	0	193	26	30	14	28	1.95
541842--541898	22	2.6	21	78	15	62	5	22	0	71	1.05
541873--541990	27	4.5	25	90	7	130	7	13	0	78	0.94
541883--541988	9	11.9	9	92	7	173	8	12	0	79	0.94
544147--544171	2	12.5	2	100	0	50	52	0	0	48	1.00
548253--548286	17	2.0	17	100	0	68	35	5	17	41	1.74
549308--549377	32	2.3	30	80	7	86	60	12	11	15	1.60
549388--549424	2	18.5	2	100	0	74	51	0	0	48	1.00
553235--553290	20	2.7	21	83	13	71	33	0	1	64	1.04
553311--553427	59	2.0	59	91	0	189	31	23	15	29	1.95
555013--555042	3	10.0	3	100	0	60	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555855--555884	2	15.0	2	100	0	60	50	0	0	50	1.00
559313--559390	29	2.7	29	93	2	129	33	15	8	42	1.78
564077--564158	29	2.8	29	96	1	146	31	14	13	40	1.85
566311--566536	121	1.9	122	94	0	400	31	26	15	26	1.96
568613--568639	12	2.2	12	100	0	54	51	7	0	40	1.30
570850--570887	18	2.0	20	90	10	62	42	0	7	50	1.31
570860--570894	18	1.9	18	88	0	52	42	0	2	54	1.15
576876--576918	15	2.9	14	83	16	52	46	13	16	23	1.83
577656--577775	29	4.1	29	86	6	163	45	16	5	32	1.72
577798--577858	18	3.5	17	76	13	61	14	18	45	21	1.84
577859--577914	21	2.7	21	94	0	94	53	14	14	17	1.73
577882--577949	28	2.3	29	87	5	93	45	19	16	19	1.85
581366--581545	94	1.9	94	98	0	351	24	25	20	29	1.99
587630--587701	30	2.4	30	92	0	117	30	25	20	23	1.99
587691--587812	31	3.9	31	78	5	129	31	18	18	31	1.95
590717--590758	15	2.9	14	83	16	50	47	14	14	23	1.80
591517--591610	28	3.3	29	89	5	147	43	12	6	37	1.69
591629--591680	18	2.9	18	80	2	61	19	19	40	21	1.92
592528--592671	65	2.2	63	81	6	164	29	15	20	34	1.94
592687--592727	20	2.0	21	90	4	66	17	17	31	34	1.93
593270--593294	13	1.9	13	100	0	50	52	16	0	32	1.44
599353--599392	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601447--601487	20	2.0	21	86	13	59	21	17	29	31	1.96
609417--609450	17	2.0	17	100	0	68	35	5	17	41	1.74
614365--614420	20	2.7	21	83	13	71	33	0	1	64	1.04
614441--614557	59	2.0	59	93	0	198	30	23	16	29	1.96
616134--616172	3	13.3	3	94	5	71	66	0	0	33	0.92
622441--622666	121	1.9	122	93	0	391	31	26	15	27	1.95
631331--631366	12	3.0	12	100	0	72	16	8	0	75	1.04
633382--633437	27	2.0	29	82	10	71	66	5	7	21	1.37
633492--633526	17	2.1	16	89	5	52	54	0	2	42	1.15
633516--633551	18	2.1	18	94	5	65	44	5	0	50	1.25
633520--633624	15	6.9	15	71	18	56	44	4	3	46	1.42
633517--633562	18	2.5	17	83	13	56	47	4	0	47	1.21
633659--633707	2	25.0	2	95	4	91	51	0	0	48	1.00
633765--633873	19	5.3	19	70	21	67	44	0	25	29	1.54
633801--633844	20	2.2	21	88	12	74	45	0	31	22	1.53
634060--634208	2	80.0	2	66	20	74	47	2	4	46	1.32
634061--634130	25	2.9	23	81	10	77	50	1	4	44	1.30
634575--634617	15	2.8	15	92	3	68	48	6	2	41	1.43
634580--634624	13	3.3	14	88	11	67	48	8	0	42	1.34
635974--636015	16	2.6	16	92	0	66	42	11	26	19	1.85
645229--645271	18	2.3	18	76	15	52	9	9	18	62	1.51
645350--645411	30	2.1	30	100	0	124	16	32	3	48	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646816--646877	19	3.3	19	76	14	67	48	3	1	46	1.28
646818--646876	18	3.3	17	82	15	66	47	3	1	47	1.29
646842--646887	18	2.5	17	83	13	56	47	4	0	47	1.21
646985--647012	2	14.0	2	100	0	56	50	0	0	50	1.00
647365--647600	2	122.0	2	74	14	201	46	1	4	47	1.32
647947--648011	17	3.6	20	82	12	63	46	7	6	40	1.58
647967--648011	17	2.6	17	92	3	72	48	6	2	42	1.41
649355--649441	16	5.5	15	87	4	93	40	12	24	22	1.89
649355--649441	32	2.7	31	83	3	111	40	12	24	22	1.89
650392--650427	3	12.0	3	100	0	72	33	0	0	66	0.92

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