genome.fa.s9000.2.7.7.80.10.50.1000.2.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: VEPZ01009000.1 Hibiscus syriacus cultivar Beakdansim tig00112382_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1742898

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1003 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)
346543--346572	13	2.3	13	100	0	60	30	16	6	46	1.73
347690--347720	12	2.6	12	94	0	53	70	9	6	12	1.31
353102--353139	18	2.1	18	90	0	58	44	10	13	31	1.77
354158--354198	15	2.7	15	92	3	64	4	21	12	60	1.50
356199--356274	24	3.3	22	70	17	64	48	25	0	26	1.51
356212--356278	24	2.8	25	76	13	77	44	23	0	31	1.54
356228--356366	54	2.6	54	81	15	162	42	26	2	28	1.67
356330--356501	55	3.2	55	77	11	151	51	22	4	21	1.64
356359--356467	51	2.2	50	89	1	164	52	22	4	21	1.65
356458--356600	30	5.1	30	69	16	101	53	18	4	22	1.63
356409--356600	81	2.3	83	88	3	289	53	19	4	22	1.63
360071--360096	11	2.4	11	100	0	52	7	19	15	57	1.62
360760--360799	21	1.9	21	100	0	80	47	15	0	37	1.45
363843--363979	23	5.9	23	77	1	112	40	20	16	22	1.90
363884--363974	47	1.9	47	86	0	128	45	19	14	20	1.85
369013--369082	31	2.2	32	85	7	90	58	4	8	28	1.47
383995--384093	51	1.9	51	89	0	153	32	18	11	38	1.86
386321--386364	16	3.0	14	84	12	61	20	22	9	47	1.78
386332--386364	16	2.1	16	100	0	66	27	24	6	42	1.78
391851--391914	24	2.7	24	82	4	76	67	15	3	14	1.36
392866--392978	60	1.9	60	82	10	142	34	17	5	42	1.72
392866--393013	60	2.5	59	76	11	140	33	18	4	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394748--394795	24	2.0	24	87	0	69	29	2	10	58	1.43
416377--416411	17	2.1	17	100	0	70	48	5	11	34	1.63
416575--416657	28	3.0	28	92	0	139	38	9	19	32	1.84
418627--418683	2	28.5	2	100	0	114	50	0	0	49	1.00
422493--422537	21	2.1	21	84	8	56	6	17	2	73	1.15
427523--427584	31	2.0	31	87	0	88	35	12	22	29	1.91
428269--428376	32	3.4	32	79	1	119	35	14	18	31	1.91
434734--434833	31	3.2	31	79	8	112	33	15	24	28	1.95
434743--434856	32	3.6	32	79	3	115	33	14	21	30	1.93
437371--437423	13	3.8	13	76	13	61	16	47	20	15	1.83
437367--437441	18	4.6	18	74	19	74	17	48	20	14	1.82
437371--437447	31	2.6	30	85	4	111	16	45	20	16	1.85
437422--437446	13	1.9	13	100	0	50	16	40	24	20	1.91
437439--437470	7	4.4	7	92	7	55	15	31	28	25	1.96
437440--437468	15	1.9	15	100	0	58	17	27	27	27	1.97
440211--440236	11	2.4	11	100	0	52	53	11	0	34	1.37
447703--447728	11	2.4	11	100	0	52	53	11	0	34	1.37
450184--450285	24	4.2	24	76	5	98	21	14	16	47	1.83
451521--451589	18	3.5	18	75	21	75	31	31	11	24	1.91
451534--451611	24	3.5	24	71	20	87	34	25	11	28	1.91
451517--451611	42	2.3	42	96	0	172	33	28	11	26	1.91
451692--451791	44	2.3	44	87	3	139	31	23	17	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457527--457618	20	4.5	20	74	9	78	34	17	15	32	1.91
458087--458125	18	2.1	19	90	9	62	17	2	10	69	1.28
464499--464616	46	2.6	46	94	0	209	21	26	9	43	1.82
464531--464688	72	2.2	72	94	0	271	21	25	10	43	1.84
464603--464729	46	2.8	46	96	0	236	20	24	11	44	1.84
464499--464729	118	2.0	118	95	0	417	21	24	9	44	1.82
464548--464711	72	2.4	69	88	6	226	21	25	10	43	1.84
472138--472594	231	2.0	227	90	3	729	28	14	18	38	1.90
472732--472762	15	2.1	15	93	0	53	25	0	25	48	1.52
473067--473229	7	23.3	7	65	13	59	28	1	23	46	1.63
473028--473091	15	4.2	15	73	13	51	28	0	23	48	1.51
473081--473229	14	10.7	14	69	10	65	27	2	24	46	1.64
476292--476323	16	2.0	16	100	0	64	18	12	31	37	1.88
476903--477044	7	19.7	7	68	18	60	21	0	22	55	1.43
476895--476993	15	6.7	15	71	11	69	22	0	19	58	1.39
476880--476972	44	2.1	43	80	11	100	24	0	18	56	1.41
476902--477007	14	7.2	15	72	16	71	22	0	20	56	1.42
476894--476972	22	3.6	23	81	11	85	22	0	17	59	1.37
476918--476994	22	3.5	22	81	8	77	24	0	19	55	1.43
476916--477007	30	3.1	30	79	14	95	23	0	20	55	1.44
477193--477247	15	3.7	15	75	20	62	23	0	16	60	1.36
477217--477276	21	2.8	20	74	18	59	21	1	21	55	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477181--477248	15	4.8	14	72	16	59	23	0	14	61	1.33
477181--477270	28	3.2	29	78	13	80	22	1	17	58	1.45
477230--477302	28	2.7	26	80	6	74	17	1	23	57	1.48
477259--477315	27	2.1	27	80	6	62	12	3	19	64	1.40
480015--480053	14	2.7	14	88	4	51	28	0	25	46	1.53
481826--481895	34	2.1	34	89	5	106	58	7	2	31	1.40
484088--484112	4	6.2	4	100	0	50	76	0	0	24	0.80
485263--485302	15	2.7	15	92	0	62	40	2	35	22	1.68
485999--486143	36	4.0	36	72	7	96	35	11	18	35	1.86
485993--486146	72	2.1	74	83	7	197	36	10	17	35	1.84
486165--486339	38	5.0	36	67	20	100	37	10	21	31	1.87
486266--486343	38	2.1	36	90	4	120	42	8	17	30	1.81
486162--486567	102	4.0	102	86	1	551	41	10	17	30	1.83
486454--486534	37	2.2	37	86	2	108	40	9	19	29	1.84
486472--486548	37	2.1	37	90	4	120	45	9	16	28	1.78
487080--487123	14	3.1	14	80	6	52	54	6	15	22	1.65
489153--489241	21	4.5	21	74	16	100	37	10	25	26	1.88
489174--489660	36	13.9	36	74	11	350	37	13	24	24	1.92
489133--489241	57	1.9	57	90	0	173	34	11	25	28	1.90
489174--489660	72	6.9	72	74	10	411	37	13	24	24	1.92
489174--489660	109	4.6	108	74	9	335	37	13	24	24	1.92
489341--489502	51	3.2	51	90	0	261	35	15	27	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489426--489466	15	2.7	15	88	0	64	29	19	31	19	1.96
489545--489793	65	3.8	65	85	4	279	40	11	20	27	1.87
489743--489837	36	2.6	35	80	12	95	38	14	20	26	1.91
489675--489901	103	2.2	102	85	5	298	40	12	17	29	1.87
491193--491304	15	7.9	14	74	12	77	1	12	5	80	0.96
491195--491305	7	15.6	7	70	15	52	1	12	5	80	0.96
503121--503168	22	2.2	22	88	0	69	37	4	14	43	1.65
505951--505993	16	2.7	15	79	10	50	25	6	9	58	1.54
506950--507063	60	1.9	60	85	3	158	37	14	14	34	1.86
506947--507079	60	2.2	60	81	6	153	37	14	15	33	1.87
508529--508610	36	2.3	36	100	0	164	36	7	31	24	1.83
513205--513230	11	2.4	11	100	0	52	38	0	0	61	0.96
515033--515064	3	10.7	3	100	0	64	0	34	0	65	0.93
516183--516656	46	10.3	46	83	0	601	42	14	22	20	1.88
516183--516651	92	5.1	92	89	1	708	42	14	22	20	1.89
524903--524963	21	2.8	21	85	5	68	24	37	22	14	1.92
526476--526517	2	21.0	2	100	0	84	50	0	0	50	1.00
528567--528641	23	3.3	22	75	9	80	26	22	25	25	2.00
528567--528626	21	2.7	22	79	5	68	25	25	23	26	2.00
532477--532519	20	2.2	20	83	8	52	39	2	2	55	1.25
534448--534607	65	2.5	65	87	3	225	29	18	22	30	1.97
534491--534637	65	2.3	63	84	8	172	29	17	21	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535933--535959	7	3.9	7	100	0	54	40	0	0	59	0.98
544584--544651	7	10.1	7	81	10	72	83	0	16	0	0.64
544589--544651	13	4.7	13	81	16	67	84	0	15	0	0.63
547545--547622	26	3.2	25	72	15	65	15	3	5	75	1.12
551224--551253	14	2.2	14	94	5	53	80	0	20	0	0.72
552063--552684	91	6.9	90	88	2	849	24	22	15	37	1.93
552063--552676	181	3.4	181	88	1	876	23	22	15	38	1.92
552093--552684	272	2.2	272	91	0	943	23	22	15	37	1.93
552742--552920	91	2.0	91	94	0	313	24	22	15	36	1.93
553390--553873	36	13.6	36	76	10	370	40	16	19	24	1.91

Tables:   1   2   3   4   5   6   7   8   9