genome.fa.s9460.2.7.7.80.10.50.1000.3.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: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2853300

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  3  of  14  ( 1601 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)
437479--437554	39	1.9	39	84	5	100	38	13	14	34	1.85
437571--437619	24	2.0	24	96	0	89	8	16	24	51	1.71
437577--437632	24	2.3	24	87	0	76	12	12	19	55	1.68
438362--438445	16	5.2	16	86	1	105	10	8	19	61	1.53
441114--441220	30	3.6	29	79	12	108	46	4	7	41	1.53
441114--441189	31	2.5	31	89	8	113	47	3	7	40	1.51
443242--443286	22	2.0	23	91	4	74	46	4	6	42	1.50
448112--448160	25	2.0	25	95	0	89	34	10	26	28	1.89
448287--448339	25	2.0	27	82	7	65	22	24	43	9	1.83
448467--448523	3	19.3	3	75	10	55	64	5	1	28	1.25
448467--448523	24	2.4	24	86	13	66	64	5	1	28	1.25
448684--448792	40	2.7	40	74	7	112	22	15	33	28	1.95
448708--449103	128	3.1	128	89	2	596	24	18	31	25	1.98
448768--449104	46	7.7	44	72	15	209	25	19	30	24	1.98
449220--449294	36	2.1	36	82	9	91	45	12	17	25	1.82
449182--449301	63	1.9	63	85	11	165	41	11	17	29	1.85
449289--449368	36	2.3	35	82	10	92	38	15	17	28	1.90
449442--449564	63	2.0	63	88	1	185	43	11	15	30	1.82
449811--449932	37	3.5	37	68	16	114	44	11	10	33	1.75
449810--449949	67	2.1	68	94	1	246	42	12	10	34	1.77
449921--449977	27	2.1	27	90	6	89	43	17	7	31	1.76
449964--450067	52	2.0	53	94	3	183	36	17	13	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450063--450245	28	6.4	28	84	7	199	46	14	10	28	1.77
450078--450242	29	5.8	28	85	7	199	44	15	10	29	1.80
450484--450587	36	3.0	36	81	4	124	35	11	20	32	1.88
450555--450786	105	2.3	100	82	6	259	37	12	18	31	1.88
451252--451287	4	9.5	4	88	11	58	25	0	25	50	1.50
453126--453196	20	3.0	24	69	22	78	40	11	23	23	1.87
453113--453187	20	3.5	20	70	20	62	37	10	25	26	1.89
453123--453202	26	3.3	26	68	20	82	42	10	23	23	1.84
453111--453204	46	2.1	45	91	2	152	38	9	25	26	1.87
455641--455702	32	2.0	32	96	3	117	61	9	14	14	1.57
459255--459303	25	2.0	25	91	0	80	36	10	24	28	1.88
459430--459482	25	2.0	27	82	7	65	22	24	43	9	1.83
459610--459666	3	19.3	3	75	10	55	64	5	1	28	1.25
459610--459666	24	2.4	24	86	13	66	64	5	1	28	1.25
459703--460107	41	10.3	40	79	12	342	45	3	5	44	1.45
460135--460185	4	12.8	4	80	12	52	23	0	1	74	0.92
460134--460186	24	2.2	25	86	10	74	22	0	1	75	0.90
460143--460177	17	2.1	16	89	5	52	20	0	2	77	0.90
460134--460180	21	2.4	19	83	16	60	21	0	2	76	0.89
461345--461392	13	3.8	13	72	27	50	14	2	0	83	0.74
461345--461393	8	6.7	7	82	11	55	14	2	0	83	0.73
461360--461403	21	2.2	20	83	4	52	18	4	0	77	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461345--461396	16	3.5	15	80	14	63	15	1	0	82	0.75
461347--461422	31	2.4	33	82	8	86	17	5	1	76	1.04
462872--462905	16	2.1	16	88	0	50	11	17	29	41	1.85
467802--467875	35	2.1	35	89	0	112	40	10	6	41	1.66
469846--469880	5	7.0	5	100	0	70	40	0	0	60	0.97
469908--469964	27	2.1	27	90	6	89	40	3	1	54	1.28
474640--475008	20	18.5	20	85	4	458	34	26	18	20	1.96
475682--475728	24	2.0	24	87	8	69	25	14	21	38	1.92
475903--475927	12	2.1	12	100	0	50	72	0	28	0	0.86
478230--478517	19	16.4	19	78	17	329	47	18	20	13	1.82
478230--478498	33	7.8	33	84	11	193	47	18	20	13	1.82
478258--478498	52	4.6	52	81	11	273	47	17	21	14	1.82
478335--478389	14	3.6	14	73	21	56	45	20	23	10	1.82
478313--478539	33	6.6	34	87	9	245	47	17	21	14	1.83
478230--478539	52	5.9	52	83	13	267	46	18	20	14	1.83
478546--478647	19	5.6	19	85	12	151	14	23	17	44	1.86
478753--478789	14	2.6	14	91	0	65	45	21	0	32	1.52
478784--478856	12	6.0	12	67	20	53	57	16	1	24	1.47
478770--478842	38	1.9	38	97	0	137	53	16	1	28	1.51
480658--480792	19	7.6	19	76	16	137	45	24	19	10	1.81
480714--480770	14	3.7	14	77	20	60	45	24	21	8	1.80
480695--480787	33	2.8	33	98	0	177	47	22	20	9	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480658--480792	52	2.5	54	75	18	131	45	24	19	10	1.81
480788--480916	19	7.3	19	75	17	125	8	17	28	45	1.77
480788--480879	33	2.8	33	93	3	150	7	18	28	45	1.76
480960--481339	93	4.1	93	98	0	744	46	18	12	22	1.83
480960--481339	185	2.0	186	98	0	744	46	18	12	22	1.83
483046--483135	14	5.7	14	74	23	81	42	23	25	8	1.83
483038--483152	33	3.5	33	95	0	212	45	20	24	9	1.81
483045--483157	19	6.8	18	72	23	88	43	22	24	9	1.83
483169--483223	14	3.6	14	73	21	56	9	27	23	40	1.85
483344--483414	33	2.2	33	92	0	115	47	18	22	11	1.80
483596--483650	22	2.5	22	81	0	74	20	16	40	23	1.91
483796--483989	20	9.6	20	82	5	221	19	19	25	35	1.95
483796--483989	60	3.2	60	83	0	253	19	19	25	35	1.95
483982--484058	21	3.7	20	70	13	57	27	16	23	32	1.96
484044--484095	20	2.6	20	96	0	95	21	13	26	38	1.90
484816--484858	7	6.1	7	86	0	59	44	37	0	18	1.50
484813--484856	21	2.1	21	95	0	79	47	31	0	20	1.50
484816--484858	14	3.1	14	93	0	68	44	37	0	18	1.50
484827--484884	14	4.2	14	80	2	64	50	27	1	20	1.58
487308--487338	16	1.9	16	93	0	53	12	12	25	48	1.77
500804--500836	2	16.5	2	100	0	66	51	0	0	48	1.00
504317--504497	69	2.6	68	80	7	179	23	21	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504503--504802	19	15.7	19	67	9	90	38	25	7	29	1.83
504503--504753	19	13.1	19	67	14	122	38	26	7	27	1.82
504535--504785	39	6.6	39	73	7	167	39	26	6	27	1.80
506030--506077	24	1.9	24	83	8	60	56	2	18	22	1.52
509990--510029	21	1.9	21	89	0	62	22	17	30	30	1.97
513349--513389	19	2.2	19	87	12	59	29	19	26	24	1.98
517854--517922	36	1.9	35	85	11	95	40	14	15	28	1.87
517913--517948	2	18.0	2	94	0	63	52	0	0	47	1.00
519045--519072	2	14.0	2	100	0	56	50	0	0	50	1.00
520608--520665	30	2.0	29	82	3	71	37	10	18	32	1.85
521455--521495	20	2.0	20	100	0	82	19	14	14	51	1.77
522479--522534	25	2.2	25	93	0	94	67	8	1	21	1.27
526904--526941	20	1.9	20	88	0	58	21	26	10	42	1.85
531511--531639	42	3.4	39	69	26	114	56	1	3	38	1.24
531519--531633	33	3.3	33	69	21	99	54	1	3	40	1.27
531533--531578	22	2.1	22	84	15	60	54	0	4	41	1.20
542738--542780	15	2.9	15	93	6	70	58	0	0	41	0.98
546825--546863	3	13.0	3	100	0	78	33	0	0	66	0.92
549846--549925	23	3.5	23	96	0	142	60	16	10	13	1.59
549839--549925	10	7.8	10	70	20	57	60	16	10	12	1.58
549832--549915	13	6.8	13	71	16	63	60	15	10	13	1.58
554774--554817	23	1.9	23	81	9	54	47	25	0	27	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554939--554997	18	3.3	18	92	0	91	22	37	20	20	1.95
554939--555008	36	1.9	36	82	0	86	25	35	20	18	1.95
556859--556886	2	14.0	2	100	0	56	50	0	0	50	1.00
562517--562603	4	21.8	4	70	17	56	22	4	1	71	1.11
562601--562666	2	32.5	2	81	14	57	42	7	0	50	1.31
562691--562721	3	10.3	3	100	0	62	32	0	0	67	0.91
562759--562793	2	18.0	2	88	5	54	45	0	2	51	1.16
562965--563017	22	2.5	22	78	3	63	18	5	0	75	0.99
562968--563039	26	2.8	26	83	8	85	16	8	0	75	1.04
562965--563077	18	6.8	17	70	19	69	13	8	1	76	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14