genome.fa.s5853.2.7.7.80.10.50.1000.3.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: 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  3  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)
364921--364987	12	5.5	11	73	19	53	77	2	0	19	0.89
364938--364976	4	9.8	4	88	8	53	74	0	0	25	0.82
365120--365339	38	6.0	37	73	16	172	43	9	3	43	1.53
365175--365242	31	2.2	31	86	5	93	44	8	2	44	1.50
365120--365329	39	5.7	37	73	18	152	43	9	2	44	1.50
365827--366389	36	16.1	36	76	11	501	40	12	19	26	1.88
365849--365978	21	7.0	21	62	28	80	42	12	19	26	1.86
365861--366243	137	2.8	137	88	0	586	41	12	19	26	1.87
365827--366389	101	5.4	101	72	14	414	40	12	19	26	1.88
366027--366083	19	3.1	19	63	27	50	43	7	19	29	1.77
366019--366083	21	3.4	21	66	24	61	43	6	20	30	1.76
366135--366295	73	2.2	72	80	5	171	38	14	23	23	1.91
365998--366389	175	2.2	173	86	2	561	40	12	20	26	1.88
367622--367872	95	2.6	95	84	3	279	30	19	19	30	1.96
373170--373237	25	2.7	25	86	8	86	77	1	0	20	0.84
373177--373235	19	3.2	18	80	20	68	77	1	0	20	0.85
373162--373218	18	3.0	20	80	12	66	78	1	0	19	0.83
373245--373342	37	2.6	34	81	12	88	48	5	1	44	1.31
373245--373342	36	2.6	37	82	9	110	48	5	1	44	1.31
373316--373392	25	3.0	25	79	12	75	40	7	7	44	1.62
373442--373570	37	3.6	36	76	14	115	44	9	3	42	1.52
373441--373539	39	2.6	36	84	7	126	45	8	2	44	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379501--379552	20	2.6	20	96	0	95	38	26	13	21	1.90
379608--379801	20	9.6	20	76	8	76	35	25	19	19	1.95
379604--379801	40	5.0	39	81	4	200	35	26	19	19	1.95
379608--379800	60	3.2	60	83	0	251	35	25	19	19	1.95
380179--380249	33	2.2	33	92	0	115	11	22	18	47	1.80
380370--380424	14	3.6	14	73	21	56	41	23	25	9	1.83
380370--380440	33	2.2	33	94	0	124	43	25	22	8	1.81
380436--380533	19	5.7	19	70	22	81	10	24	22	42	1.84
380458--380547	14	5.7	14	74	23	81	8	25	23	42	1.83
380441--380555	33	3.5	33	95	0	212	9	24	20	45	1.81
382245--382710	93	5.0	93	98	1	900	22	12	19	46	1.83
382740--382853	19	6.8	16	72	18	74	46	28	18	7	1.75
382752--382864	19	6.5	19	74	19	120	46	28	17	7	1.74
382772--382864	33	2.8	32	91	4	150	46	27	18	7	1.76
382752--382864	52	2.2	51	81	9	131	46	28	17	7	1.74
382881--382936	14	3.7	14	80	17	67	10	21	23	44	1.83
382865--382955	32	2.8	32	93	1	155	10	20	21	46	1.82
382860--382975	19	6.8	18	76	16	113	10	20	23	45	1.81
382927--382992	19	3.4	19	87	6	89	10	16	27	45	1.80
384907--384942	14	2.6	14	95	0	63	33	0	22	44	1.53
385049--385148	18	5.6	18	82	14	136	43	18	24	15	1.87
385049--385148	33	2.8	38	78	18	133	43	18	24	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
385155--385365	52	4.0	52	84	12	297	14	21	17	46	1.83
385177--385393	19	12.4	19	78	19	258	13	20	18	47	1.82
385196--385393	33	5.8	33	87	9	283	13	20	18	47	1.82
385215--385269	14	3.6	14	78	21	65	10	20	20	49	1.78
385177--385393	104	2.1	104	93	4	366	13	20	18	47	1.82
387021--387516	250	2.0	246	96	3	908	30	24	16	28	1.97
388102--388148	24	2.0	24	87	8	69	38	21	14	25	1.92
388823--389157	20	17.5	20	80	12	312	20	17	27	34	1.95
389045--389104	30	2.0	30	87	6	86	26	16	26	30	1.97
403371--403510	43	3.3	42	83	2	154	27	18	20	32	1.96
412637--412772	41	3.3	40	74	10	114	36	18	11	33	1.87
413979--414024	22	2.1	22	87	0	65	34	13	8	43	1.74
414431--414559	42	3.2	39	72	8	105	30	20	17	31	1.96
414444--414649	83	2.5	80	80	6	234	31	20	16	30	1.95
414686--414777	39	2.3	40	78	12	100	28	20	18	32	1.96
424764--424814	20	2.6	19	82	14	68	27	19	27	25	1.99
429521--429591	19	3.5	19	81	12	79	35	15	22	26	1.94
430006--430145	45	3.4	44	73	20	165	35	12	26	26	1.91
430051--430183	34	3.6	34	72	20	122	39	11	22	27	1.88
429996--430215	79	2.8	79	94	0	368	39	11	22	26	1.88
436035--436079	2	23.0	2	95	4	83	51	0	0	48	1.00
436542--436783	107	2.3	107	79	2	265	38	10	13	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437353--437436	44	1.9	44	92	0	141	45	9	16	28	1.79
437736--437864	68	1.9	67	90	1	204	15	12	33	38	1.85
439482--439834	175	2.0	176	98	1	690	36	14	18	30	1.91
440474--440526	18	2.9	18	88	0	79	18	22	33	24	1.97
444610--444790	31	5.6	34	70	22	124	46	1	4	47	1.32
444684--444785	34	3.1	32	76	15	86	46	2	1	49	1.28
444734--444799	31	2.2	29	86	5	87	46	4	0	48	1.22
444637--444790	65	2.4	63	82	8	177	46	1	3	48	1.29
444893--444920	14	2.0	14	100	0	56	35	0	7	57	1.26
450725--450775	25	2.0	26	84	3	68	29	13	19	37	1.90
455264--455309	18	2.6	18	86	3	58	39	4	28	28	1.76
458423--458456	18	1.9	18	88	5	52	29	20	0	50	1.49
466629--467216	262	2.3	257	88	5	855	40	20	12	27	1.88
471741--471773	15	2.2	15	89	10	50	48	3	0	48	1.17
474927--474980	2	27.0	2	100	0	108	50	0	0	50	1.00
475782--475831	26	2.0	25	84	4	64	20	8	6	66	1.40
476087--476128	17	2.5	17	100	0	84	14	14	23	47	1.80
480171--480370	86	2.4	81	84	5	231	31	20	12	36	1.89
480171--480393	81	2.7	85	81	8	237	31	19	13	35	1.90
483048--483142	42	2.3	41	83	5	120	25	21	21	32	1.98
483228--483498	118	2.3	118	84	8	354	40	14	17	26	1.89
483197--483601	116	3.4	118	81	9	395	41	14	20	23	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483539--483679	39	3.6	39	93	0	230	46	10	24	18	1.81
486315--486339	2	12.5	2	100	0	50	52	0	0	48	1.00
487220--487263	22	2.0	22	90	0	70	27	15	34	22	1.95
496843--496957	37	3.1	37	100	0	230	35	13	16	34	1.87
498864--498944	21	3.9	21	86	0	90	27	28	18	25	1.98
501909--501972	31	2.1	31	82	5	76	37	25	20	17	1.93
502749--502876	58	2.2	58	90	2	195	45	15	8	30	1.76
506955--507085	29	4.5	29	89	3	192	48	18	3	30	1.63
507059--507197	58	2.4	58	90	0	215	48	10	7	33	1.65
510371--510421	21	2.4	21	90	0	75	35	15	7	41	1.76
511316--511341	12	2.2	12	100	0	52	65	0	7	26	1.20
512059--512279	31	7.1	31	83	7	261	27	19	18	35	1.94
512059--512279	93	2.4	93	85	6	304	27	19	18	35	1.94
512479--512557	31	2.5	31	83	0	104	27	13	10	48	1.75
512931--513019	24	3.7	24	95	0	151	24	22	30	22	1.99
513423--513513	30	3.0	29	80	13	101	45	13	13	28	1.81
513435--513513	30	2.6	29	86	11	104	44	12	12	30	1.80
517027--517230	35	5.5	35	67	18	106	36	17	22	24	1.94
517032--517245	76	2.8	76	90	1	329	35	17	21	26	1.95
518295--518346	17	3.2	17	75	10	54	50	13	3	32	1.60
519571--519607	17	2.1	18	95	5	67	56	0	0	43	0.99
519574--519613	17	2.4	17	87	8	55	55	2	0	42	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519635--519694	11	5.6	11	74	7	52	41	1	1	55	1.20
519941--520040	4	24.5	4	75	18	66	76	1	20	3	0.98
519941--520042	34	3.1	32	76	18	93	76	0	19	2	0.97
521276--521550	92	3.0	91	83	2	345	32	22	13	30	1.93
521362--521525	45	3.6	44	69	11	107	33	21	12	32	1.90
521465--521766	132	2.3	133	86	3	412	32	21	16	29	1.95
521931--522012	3	27.7	3	97	2	157	34	0	0	65	0.93
523942--524440	131	3.8	131	86	0	665	32	11	16	39	1.85
526215--526273	31	1.9	31	92	0	100	42	5	8	44	1.57
526297--527960	22	75.6	22	88	2	2383	48	10	0	41	1.39

Tables:   1   2   3   4   5