genome.fa.s8668.2.7.7.80.10.50.1000.3.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: VEPZ01008668.1 Hibiscus syriacus cultivar Beakdansim tig00111671_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2122653

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1078 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)
416079--417148	489	2.2	487	97	1	1995	40	7	11	41	1.69
416910--417007	46	2.1	45	81	7	108	34	5	17	42	1.71
417341--417413	23	3.2	23	88	0	110	34	5	23	36	1.78
416702--417579	431	2.0	431	95	1	1564	40	7	12	39	1.70
429116--429171	28	2.0	28	100	0	112	28	25	17	28	1.98
429345--429412	21	3.2	21	85	0	82	55	2	11	29	1.50
429355--429694	21	16.0	21	74	7	202	45	4	20	29	1.70
429379--429710	65	5.2	63	72	9	179	43	4	21	29	1.72
429570--429710	44	3.2	44	84	2	178	41	4	23	30	1.73
429697--429728	14	2.3	14	94	0	55	28	3	31	37	1.73
429912--429947	15	2.3	16	90	4	56	55	11	5	27	1.57
430143--430191	27	1.9	27	88	12	77	22	46	12	18	1.82
436279--436701	217	1.9	217	93	0	731	38	15	13	32	1.86
440256--440306	23	2.2	23	96	0	93	11	3	25	58	1.50
440681--440742	20	3.1	19	72	11	52	56	0	3	40	1.15
442243--442347	29	3.7	29	94	1	185	15	16	20	48	1.81
443214--443491	95	3.0	93	84	6	355	41	10	10	38	1.73
443214--443491	93	3.0	94	83	6	348	41	10	10	38	1.73
444100--444176	39	2.0	39	90	7	122	49	0	10	40	1.37
444154--444186	17	1.9	17	88	11	50	72	0	3	24	0.98
444154--444187	18	1.9	17	88	5	50	73	0	2	23	0.97
447717--447794	39	2.0	39	100	0	156	35	28	20	15	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450178--450225	3	16.0	3	100	0	96	66	0	0	33	0.92
450380--450548	91	1.9	90	94	1	302	23	22	14	39	1.91
450615--450663	18	2.7	18	93	3	80	12	20	20	46	1.82
450500--450773	129	2.1	131	87	7	396	22	22	16	38	1.93
450717--451611	136	6.6	136	94	0	1508	25	22	17	34	1.96
451913--452081	76	2.3	73	84	3	221	38	15	18	27	1.91
452092--452177	28	3.0	28	94	1	145	41	17	11	29	1.84
452118--452164	13	3.5	13	73	21	51	42	17	10	29	1.82
452103--452218	15	7.6	15	66	24	64	42	16	16	25	1.88
452165--452341	39	4.6	39	80	3	137	41	11	19	27	1.86
452201--452351	78	1.9	78	83	2	196	38	11	19	31	1.87
452252--452651	40	10.0	40	90	2	556	41	11	16	29	1.84
452380--452448	23	3.3	23	66	29	71	42	14	11	31	1.82
452628--452799	76	2.3	74	83	8	204	38	13	15	31	1.86
454204--454330	10	13.8	9	78	12	109	0	14	0	84	0.67
454204--454328	1	125.0	1	69	0	79	0	14	0	84	0.66
454204--454330	15	8.5	14	79	15	123	0	14	0	84	0.67
454217--454327	21	5.3	20	78	16	102	0	15	0	84	0.62
459016--459053	16	2.4	16	86	8	51	57	5	5	31	1.43
460833--460876	20	2.2	20	83	0	52	13	0	29	56	1.38
461051--461077	3	9.0	3	100	0	54	66	0	0	33	0.92
465656--465699	18	2.4	18	88	3	61	22	6	27	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469346--469375	12	2.5	12	94	0	51	33	43	6	16	1.74
473441--473480	21	1.9	21	89	0	62	35	15	20	30	1.93
473903--473957	18	3.1	18	81	0	65	45	14	10	29	1.79
481572--481684	60	1.9	60	87	3	165	36	13	13	37	1.83
481572--481664	31	3.1	31	69	12	84	35	10	13	39	1.80
483000--483043	20	2.3	19	81	11	54	36	0	0	63	0.95
483102--483126	12	2.1	12	100	0	50	8	48	16	28	1.74
484132--484579	21	21.0	21	75	6	317	44	4	20	30	1.71
484135--484579	65	6.9	63	74	8	342	44	4	21	30	1.71
484169--484551	151	2.5	151	82	7	463	43	4	21	30	1.72
484169--484576	86	4.8	85	75	8	290	43	4	21	30	1.72
484719--484754	15	2.3	16	90	4	56	58	8	2	30	1.42
490419--490488	29	2.4	30	84	13	85	57	1	2	38	1.23
490402--490503	33	3.2	32	74	18	88	55	0	1	41	1.17
495946--495983	7	5.4	7	90	0	58	28	26	26	18	1.98
495980--496032	5	9.8	5	76	15	52	7	22	50	18	1.72
495974--496033	17	3.2	17	79	20	75	11	23	46	18	1.81
495980--496032	22	2.4	22	100	0	106	7	22	50	18	1.72
496029--496127	9	10.3	9	77	10	81	29	27	27	16	1.97
496054--496128	29	2.5	31	89	8	120	29	26	26	17	1.97
496029--496127	19	5.2	19	76	17	80	29	27	27	16	1.97
503281--503311	7	4.4	7	95	0	53	25	25	29	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503308--503365	5	10.8	5	78	14	62	6	22	51	18	1.70
503301--503365	22	3.0	22	100	0	130	9	23	49	18	1.76
503368--503431	19	3.3	19	83	12	69	28	29	26	15	1.96
503394--503452	20	2.9	21	80	14	70	32	23	25	18	1.97
508985--509064	28	2.8	29	92	3	135	15	20	18	46	1.84
517565--517671	52	2.1	52	94	0	187	15	14	28	40	1.88
521971--522010	21	1.9	21	89	0	62	35	15	20	30	1.93
522426--522480	18	3.1	18	86	0	74	40	20	10	29	1.86
523564--523593	15	1.9	16	93	6	53	43	20	30	6	1.77
540104--540189	43	2.0	43	90	0	136	30	10	24	34	1.89
543360--543411	2	26.0	2	100	0	104	50	0	0	50	1.00
543698--543742	23	2.0	23	95	0	81	66	13	15	4	1.39
543737--543801	9	7.3	9	77	13	55	81	1	15	1	0.84
543732--543801	17	4.0	17	82	12	88	80	1	17	1	0.87
548815--548936	22	5.6	22	96	0	219	32	15	13	37	1.87
549348--550125	115	6.9	114	88	3	1018	38	13	18	28	1.90
549368--550125	229	3.3	228	89	2	1082	38	13	18	28	1.90
550349--550419	6	11.3	6	77	8	54	42	1	0	56	1.08
550351--550419	12	5.5	13	77	22	76	43	1	0	55	1.08
550349--550446	15	6.4	15	71	13	74	48	1	0	50	1.07
550856--550893	17	2.2	17	90	0	58	78	5	13	2	1.02
554356--554410	28	2.0	28	100	0	110	30	25	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554595--554662	21	3.2	21	85	0	82	55	2	11	29	1.50
554608--554960	21	16.5	21	73	6	226	43	4	22	29	1.74
554820--554960	65	2.2	64	83	5	167	40	4	24	30	1.74
554820--554960	44	3.2	44	84	2	178	40	4	24	30	1.74
554758--554960	86	2.3	86	78	5	203	42	4	23	29	1.75
554947--554978	14	2.3	14	94	0	55	28	3	31	37	1.73
555393--555446	24	2.1	27	86	10	78	22	48	11	18	1.79
559472--559504	5	6.6	5	100	0	66	60	0	39	0	0.97
561808--561839	2	16.0	2	100	0	64	50	0	0	50	1.00
564390--564426	12	3.1	12	96	0	65	8	29	8	54	1.59
570852--571309	43	10.6	44	80	5	481	32	17	24	25	1.97
570877--571296	86	4.9	86	90	2	580	31	17	25	25	1.97
572160--572209	26	1.9	26	100	0	100	54	12	16	18	1.72
573949--574533	41	14.3	41	80	6	526	30	19	22	27	1.98
573975--574533	122	4.6	123	79	6	368	30	19	22	27	1.98
574811--574953	2	73.5	2	70	24	85	39	1	5	53	1.33
574874--575030	30	5.3	30	78	12	155	38	1	6	53	1.38
574808--574970	44	3.7	45	73	15	110	38	1	6	53	1.38
578481--578505	2	12.5	2	100	0	50	52	0	0	48	1.00
579433--579508	30	2.6	29	81	4	91	21	19	23	35	1.96
585861--585923	33	1.9	33	96	0	117	17	23	20	38	1.93
586348--586570	112	2.0	114	98	1	432	41	12	13	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593028--593060	7	4.7	7	100	0	66	75	0	24	0	0.80
594746--594812	33	2.0	33	88	0	98	17	14	8	58	1.62
600614--600745	31	4.3	31	75	4	97	35	17	8	38	1.80
600796--600839	18	2.4	18	75	14	54	34	11	31	22	1.90
601148--601516	20	18.5	20	84	4	449	34	26	18	20	1.96
602190--602236	24	2.0	24	87	8	69	25	14	21	38	1.92
602411--602435	12	2.1	12	100	0	50	72	0	28	0	0.86
604734--605039	19	17.4	19	78	17	349	47	18	20	14	1.83
604734--605061	33	9.5	33	75	16	147	46	18	20	14	1.84
604765--605039	52	5.2	52	90	6	321	47	17	20	14	1.83

Tables:   1   2   3   4   5   6   7   8   9