genome.fa.s6550.2.7.7.80.10.50.1000.3.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: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1576944

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 954 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)
387654--387729	28	2.9	27	83	11	97	50	5	1	43	1.33
387642--387841	64	3.0	64	78	15	224	45	6	2	46	1.41
387696--388025	36	8.7	37	81	11	300	43	7	2	46	1.45
388008--388038	2	15.0	2	93	6	53	48	3	0	48	1.17
404735--405041	149	2.1	149	95	0	560	27	17	20	34	1.95
407267--407302	3	11.3	3	94	5	54	63	0	0	36	0.94
408471--408504	14	2.4	14	90	0	50	29	14	0	55	1.40
409242--409267	3	8.7	3	100	0	52	34	0	0	65	0.93
411083--411146	17	3.2	20	67	20	53	39	10	23	26	1.88
411064--411324	139	1.9	139	89	4	411	36	16	21	26	1.94
412966--413352	130	3.0	130	82	2	481	41	14	10	33	1.80
415423--415471	20	2.5	19	80	9	53	73	0	2	24	0.94
417321--417448	6	20.3	6	69	21	68	4	19	0	75	0.97
417321--417452	11	11.2	12	68	22	59	4	19	0	75	0.97
417322--417452	17	7.8	17	70	24	73	4	19	0	75	0.97
417339--417448	7	16.0	7	69	16	61	5	19	0	75	0.99
417324--417402	28	2.9	29	78	17	89	3	21	0	74	0.97
417328--417446	49	2.5	46	84	6	148	5	20	0	74	1.00
417326--417452	29	4.8	26	75	18	102	4	19	0	75	0.97
417321--417448	19	7.1	19	67	19	71	4	19	0	75	0.97
417938--417977	22	1.9	21	85	10	55	22	17	10	50	1.76
420951--420983	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423836--423912	3	25.7	3	100	0	154	33	0	0	66	0.92
426138--426183	18	2.5	17	80	13	56	71	0	15	13	1.14
426138--426186	19	2.6	20	78	12	59	71	0	16	12	1.14
426430--426482	24	2.2	24	96	0	97	26	16	28	28	1.97
427429--427989	282	2.0	282	94	0	989	29	21	18	30	1.97
431500--431635	53	2.8	45	79	16	173	32	9	5	52	1.58
431783--431841	28	2.0	30	81	15	70	32	10	5	52	1.57
432083--432146	29	2.2	29	91	0	101	48	10	7	32	1.67
432000--432259	142	1.8	141	88	4	398	42	11	10	35	1.75
432112--432369	110	2.3	113	87	3	362	41	10	12	36	1.76
432322--432398	29	2.6	29	79	2	82	46	11	7	33	1.69
433019--433143	30	4.2	30	74	14	107	21	9	31	37	1.86
433044--433165	59	2.1	59	96	0	226	20	11	30	37	1.88
433072--433165	30	3.2	29	70	20	86	21	12	28	37	1.90
433044--433150	29	3.7	29	72	16	103	20	11	31	36	1.88
433221--433327	33	3.3	33	90	3	164	43	6	5	43	1.53
433268--433366	7	14.9	7	77	17	95	44	9	3	43	1.51
433370--433443	35	2.2	33	80	9	87	44	6	6	41	1.57
433414--433493	26	3.2	26	73	22	89	43	10	7	38	1.66
433388--433615	83	2.7	82	80	10	257	44	8	6	40	1.59
433438--433699	33	9.0	30	72	20	134	46	7	3	42	1.49
433492--433583	26	3.7	24	88	8	130	48	7	3	40	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433602--433676	37	2.0	37	89	5	116	48	4	0	48	1.20
433608--433755	50	2.8	51	78	14	142	46	4	2	46	1.35
433716--433778	29	2.2	29	88	0	90	44	4	7	42	1.54
433688--433825	70	1.9	72	81	11	169	42	5	7	44	1.56
433846--433900	25	2.2	23	79	17	65	47	1	1	49	1.23
433662--433888	39	5.7	39	66	20	114	44	4	5	44	1.47
433999--434087	28	3.2	28	69	28	89	22	7	5	64	1.42
433991--434102	56	2.0	56	100	0	224	23	7	5	64	1.40
434011--434100	28	3.2	28	69	27	91	25	5	4	64	1.34
434994--435052	31	1.9	31	82	3	75	23	18	6	50	1.70
437405--437456	23	2.3	23	89	0	77	50	19	13	17	1.78
437468--437626	72	2.2	72	82	2	185	42	15	13	28	1.84
451857--451894	18	2.1	18	90	9	60	2	18	0	78	0.86
451862--451904	18	2.2	19	84	12	52	11	16	0	72	1.13
452081--452442	173	2.1	175	85	2	496	33	15	16	34	1.90
452409--452485	20	3.8	19	68	20	57	24	23	27	24	2.00
454335--454393	22	2.7	21	73	17	57	5	23	0	71	1.06
463928--464354	128	3.3	128	95	0	766	21	23	20	33	1.97
465047--465127	22	3.6	22	96	1	144	24	29	27	18	1.98
465061--465123	10	5.5	13	65	27	52	26	26	26	19	1.99
466777--466911	68	2.0	65	95	4	243	26	23	22	27	1.99
469575--469655	22	3.6	22	96	1	144	24	29	27	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469589--469651	10	5.5	13	65	27	52	26	26	26	19	1.99
470887--470931	21	2.1	21	87	0	63	15	24	28	31	1.96
473216--473253	17	2.3	17	86	4	51	60	21	10	7	1.54
478255--478323	20	3.5	20	91	0	111	28	28	21	20	1.98
478812--478900	20	4.4	20	90	2	135	34	24	22	17	1.96
478892--478945	14	3.5	14	73	22	54	44	20	24	11	1.83
478872--478967	33	2.8	33	90	3	138	43	20	22	12	1.86
478982--479077	33	2.9	34	88	3	140	13	22	20	42	1.87
480603--480712	42	2.6	41	74	8	105	24	19	35	20	1.96
481192--481260	20	3.5	20	85	0	84	37	21	18	21	1.94
481291--481424	33	3.8	33	77	7	106	14	18	22	44	1.87
481273--481444	87	1.9	90	87	7	251	16	18	21	43	1.88
481284--481447	20	8.9	20	77	17	158	16	18	21	43	1.88
483330--483385	20	2.8	20	91	0	85	50	23	16	10	1.76
483333--483401	20	3.5	20	89	0	84	42	24	17	15	1.88
483747--483802	22	2.5	22	91	0	94	25	12	41	21	1.88
483998--484070	20	3.7	20	81	0	92	23	16	19	41	1.90
484060--484112	21	2.5	21	87	0	79	35	18	24	20	1.95
485728--485778	20	2.5	20	93	0	93	43	25	13	17	1.86
485799--485951	21	7.4	21	84	3	195	22	16	30	30	1.96
485799--485995	41	4.9	41	83	6	240	22	16	30	30	1.96
485799--485995	62	3.2	62	84	3	222	22	16	30	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485945--485991	19	2.4	19	85	3	58	23	17	31	27	1.96
486522--486567	21	2.1	22	84	11	60	30	4	26	39	1.75
487469--487508	14	2.9	14	92	3	64	37	5	40	17	1.72
488002--488223	116	1.9	116	86	2	313	28	22	13	36	1.92
488083--488444	159	2.3	160	81	4	401	28	18	16	37	1.92
491160--491225	10	6.7	9	76	20	53	4	16	0	78	0.90
491160--491225	20	3.3	20	71	12	64	4	16	0	78	0.90
505938--505977	17	2.3	18	86	4	55	65	7	0	27	1.20
508065--508124	22	2.7	22	84	0	66	33	21	21	23	1.97
509533--509564	3	10.7	3	93	0	55	65	0	31	3	1.08
515137--515178	20	2.1	21	86	8	61	33	33	2	30	1.71
516327--516373	22	2.1	23	92	4	78	55	0	6	38	1.26
522268--522295	6	4.7	6	100	0	56	82	0	17	0	0.68
522997--523029	2	16.5	2	100	0	66	51	0	0	48	1.00
526242--526283	17	2.6	16	79	17	50	28	9	11	50	1.70
526290--526470	96	1.9	96	88	0	272	28	11	19	40	1.86
529499--529540	14	3.1	14	79	3	50	16	26	19	38	1.92
534256--534395	31	4.5	31	98	0	271	19	19	20	40	1.91
536561--536590	11	2.7	11	100	0	60	40	26	0	33	1.57
540167--540289	59	2.1	60	90	1	194	32	17	16	33	1.93
541017--541059	19	2.3	19	87	0	59	37	0	4	58	1.19
544021--544091	30	2.5	28	82	12	83	16	19	22	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544034--544092	30	2.0	30	100	0	118	16	20	20	42	1.89
548309--548336	2	14.0	2	100	0	56	50	0	0	50	1.00
548352--548433	27	3.0	27	82	8	94	21	6	1	70	1.16
548381--548420	17	2.3	18	91	4	64	25	5	0	70	1.08
549453--549507	24	2.3	24	100	0	110	18	27	18	36	1.94
559518--559567	19	2.6	19	96	0	91	16	28	36	20	1.93
559510--559543	14	2.4	14	95	0	59	14	26	38	20	1.91
560899--560933	18	1.9	18	88	0	52	54	0	17	28	1.43
564630--564698	19	3.6	19	98	0	129	15	27	36	20	1.93
564608--564655	14	3.4	14	97	0	87	14	27	37	20	1.92

Tables:   1   2   3   4   5   6   7   8