genome.fa.s8514.2.7.7.80.10.50.1000.2.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: VEPZ01008514.1 Hibiscus syriacus cultivar Beakdansim tig00111377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  567339

Tables:   1   2   3   

This is table  2  of  3  ( 265 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)
339859--339907	25	2.0	25	88	8	73	28	12	34	24	1.91
341602--341723	46	2.7	46	85	0	163	39	22	16	21	1.92
344197--344236	14	3.1	13	82	10	55	60	0	0	40	0.97
344210--344258	17	2.8	17	84	3	53	46	0	0	53	1.00
345705--345819	3	38.3	3	94	0	203	64	0	2	33	1.07
346143--346566	113	3.8	113	96	0	733	29	18	14	38	1.90
347234--347872	83	7.7	83	91	1	1016	36	22	13	27	1.91
349013--349065	10	4.9	10	88	11	70	1	13	0	84	0.69
349013--349050	11	3.3	12	92	7	62	0	10	0	89	0.49
349013--349062	22	2.2	23	92	3	84	2	12	0	86	0.67
349013--349066	12	4.9	11	86	13	67	1	14	0	83	0.73
356325--356357	15	2.3	15	89	5	50	48	3	0	48	1.17
360397--360436	14	3.1	13	82	10	55	60	0	0	40	0.97
361360--361386	14	1.9	14	100	0	54	0	14	3	81	0.82
361881--361986	3	35.3	3	94	0	176	62	0	3	33	1.13
377075--377122	20	2.3	21	86	13	73	25	25	8	41	1.83
386346--386370	13	1.9	13	100	0	50	36	0	0	64	0.94
386879--386919	16	2.5	17	84	15	59	36	0	4	58	1.20
390876--390911	18	2.0	18	88	0	54	25	27	27	19	1.99
393119--393164	23	2.0	23	84	12	60	34	6	2	56	1.37
393377--393481	20	5.1	20	85	10	140	45	10	19	24	1.81
393836--393923	20	4.4	20	76	8	90	21	18	18	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393972--394025	20	2.7	21	80	8	67	25	12	31	29	1.93
409928--409981	15	3.4	15	73	14	54	57	3	1	37	1.27
410242--410274	12	2.6	13	85	9	50	39	3	0	57	1.14
410216--410293	40	1.9	40	81	2	93	46	3	1	48	1.28
411343--411411	32	2.2	32	100	0	138	36	5	17	40	1.74
416008--416045	20	1.9	19	94	5	67	50	10	0	39	1.37
416306--416462	21	7.8	20	72	7	84	38	24	17	19	1.92
416429--416621	20	9.6	20	83	4	228	35	25	20	18	1.95
417121--417180	19	3.4	19	73	21	67	41	25	21	11	1.87
417138--417199	14	4.1	14	73	18	52	45	22	22	9	1.81
417121--417210	33	2.7	33	92	0	144	43	25	21	10	1.83
417206--417289	19	4.7	19	80	14	106	10	22	22	44	1.84
417206--417311	52	2.0	52	96	0	194	10	23	20	45	1.82
417416--417513	19	5.4	19	75	15	91	11	15	27	45	1.80
417401--417478	32	2.4	32	89	2	111	10	16	25	47	1.78
419435--419470	14	2.6	14	95	0	63	33	0	22	44	1.53
419573--419670	19	5.4	19	84	13	143	45	17	22	14	1.84
419573--419689	53	2.2	53	98	1	227	44	17	23	13	1.85
419679--419898	19	12.7	19	75	20	223	15	20	17	46	1.84
419685--419870	52	3.6	51	95	2	320	15	20	16	47	1.83
419679--419898	71	3.2	69	77	14	224	15	20	17	46	1.84
419703--419912	33	6.2	32	75	16	194	14	20	18	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422413--422459	24	2.0	24	87	8	69	38	21	14	25	1.92
423187--423394	20	10.4	20	86	3	233	19	19	25	36	1.95
423381--423463	21	4.0	21	73	6	78	25	16	24	33	1.96
423361--423459	42	2.4	43	77	11	100	21	18	23	37	1.94
423670--423791	59	2.1	58	81	1	136	31	15	14	37	1.88
426951--426994	15	2.9	16	83	10	65	36	2	0	61	1.09
427041--427074	17	2.0	17	88	0	50	64	0	0	35	0.94
433480--433556	36	2.1	36	95	0	136	20	27	18	33	1.96
436838--436875	14	2.7	14	95	0	67	57	7	0	34	1.28
438548--438581	18	2.0	16	88	11	50	44	8	0	47	1.34
439447--439530	32	2.8	30	84	10	109	33	3	2	60	1.27
439447--439528	31	2.7	31	90	5	123	31	3	2	62	1.26
439748--439789	19	2.2	20	83	12	52	35	7	7	50	1.57
439820--439920	17	6.0	17	67	22	54	53	0	0	45	1.07
439878--439920	14	2.8	15	89	10	61	53	0	0	46	1.00
439823--439918	16	5.7	16	65	19	52	52	0	1	46	1.07
441304--441332	11	2.6	11	100	0	58	48	0	0	51	1.00
442047--442102	24	2.3	24	84	0	76	57	17	14	10	1.65
442076--442112	14	2.6	15	79	12	51	62	16	13	8	1.54
442810--442874	32	2.0	33	96	3	123	53	12	21	12	1.70
442973--443052	13	5.8	15	68	20	50	52	0	0	47	1.00
442969--443054	38	2.3	38	84	8	129	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446923--446962	17	2.4	17	87	8	55	57	0	2	40	1.12
446942--446988	20	2.3	21	79	20	55	61	0	4	34	1.15
454582--454667	31	2.8	31	94	0	145	26	18	8	46	1.77
460027--460056	3	10.0	3	100	0	60	66	0	33	0	0.92
466635--466719	34	2.5	34	94	0	152	16	23	24	35	1.95
466795--466838	23	1.9	23	100	0	88	9	25	40	25	1.84
466792--466845	23	2.4	22	84	9	81	11	24	42	22	1.85
466993--467070	41	1.9	41	97	0	147	33	14	32	20	1.92
469403--469433	6	5.2	6	96	0	53	19	0	61	19	1.35
469884--470309	37	10.8	41	73	22	298	49	6	4	40	1.47
469930--470362	8	58.8	8	68	21	209	49	6	3	39	1.46
469988--470068	23	3.5	23	79	12	103	48	7	4	39	1.53
470031--470311	37	7.4	37	83	13	365	49	6	4	39	1.49
470022--470355	23	14.1	22	70	20	160	49	6	4	39	1.48
469888--470370	14	36.6	13	69	19	224	49	6	4	39	1.48
473910--473960	19	2.6	20	93	3	86	37	27	13	21	1.91
474014--474204	20	9.6	20	80	7	201	35	25	19	19	1.96
474049--474204	59	2.6	59	83	8	169	33	25	19	21	1.97
474577--474644	32	2.1	34	88	5	104	10	22	17	50	1.76
474779--474821	18	2.3	18	88	4	59	44	27	18	9	1.80
474817--474913	19	5.6	19	70	22	79	10	24	22	42	1.85
474839--474927	14	5.7	14	72	25	72	8	25	23	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474822--474935	33	3.5	33	93	1	203	9	24	21	44	1.82
478346--478370	12	2.1	12	100	0	50	0	28	0	72	0.86
478544--478589	24	2.0	23	87	12	67	36	21	15	26	1.93
479267--479597	20	16.5	20	88	3	452	21	19	26	33	1.96
479584--479635	20	2.6	20	90	6	79	13	19	25	42	1.87
482263--482363	37	2.9	34	81	7	107	29	9	25	34	1.88
482283--482363	33	2.5	33	80	7	94	27	9	24	38	1.87
482348--482419	33	2.2	33	90	5	110	15	9	33	41	1.80
484941--484995	26	2.2	24	84	9	67	27	20	25	27	1.99
485609--485770	63	2.5	64	93	3	274	23	20	20	34	1.97
486617--486642	13	2.0	13	100	0	52	61	0	0	38	0.96
491368--491421	26	2.1	26	96	0	99	37	27	12	22	1.91
492348--492393	23	2.0	23	95	0	83	2	13	19	65	1.37
493339--493374	16	2.2	16	95	0	63	16	16	19	47	1.83
496985--497021	18	2.0	20	89	10	60	51	0	0	48	1.00
498803--498850	21	2.3	21	89	7	71	37	16	20	25	1.93
499369--499393	12	2.1	12	100	0	50	32	20	8	40	1.81
503585--503631	14	3.4	14	87	0	67	23	38	27	10	1.88
503621--503677	23	2.5	24	85	8	82	29	24	35	10	1.89
503681--503736	29	1.9	29	92	0	94	19	28	37	14	1.91
503795--503851	29	2.0	29	96	0	105	21	31	33	14	1.92
508237--508324	45	2.0	45	86	4	124	37	11	17	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508307--508456	52	2.9	52	94	3	250	38	24	8	29	1.85
509059--509134	35	2.2	35	90	0	116	39	22	1	36	1.63
509531--509778	130	1.9	130	92	0	415	36	15	12	35	1.85
509545--509809	130	2.0	129	81	4	300	40	13	12	33	1.83
510244--510277	16	2.0	18	88	11	54	64	5	2	26	1.30
510508--510762	141	1.8	140	80	10	315	32	12	21	33	1.91
513179--513230	26	2.0	25	85	10	70	23	9	28	38	1.86
513404--513469	27	2.4	25	76	16	60	54	6	0	39	1.25
514233--514313	41	2.0	40	87	2	117	35	23	14	25	1.93
517137--517211	2	37.5	2	100	0	150	50	0	0	49	1.00

Tables:   1   2   3