genome.fa.s8935.2.7.7.80.10.50.1000.2.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: VEPZ01008935.1 Hibiscus syriacus cultivar Beakdansim tig00112253_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775090

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1015 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)
305371--305422	21	2.5	21	93	0	95	38	7	17	36	1.78
305492--305553	18	3.2	20	77	13	74	27	12	29	30	1.93
305480--305547	18	3.6	18	77	11	73	19	16	33	30	1.93
305855--305882	2	14.0	2	100	0	56	50	0	0	50	1.00
310876--310915	21	1.9	21	90	10	64	55	0	17	27	1.43
312542--312619	6	13.0	6	95	0	111	50	0	39	10	1.37
313144--313172	14	2.1	14	100	0	58	34	6	0	58	1.25
319565--319629	24	2.5	26	82	14	89	60	3	29	7	1.40
319576--319629	24	2.2	24	96	0	99	61	3	27	7	1.40
323538--323617	42	1.9	42	84	5	108	25	13	23	37	1.92
323540--323628	42	2.1	42	81	4	99	23	15	25	34	1.95
325067--325117	20	2.6	20	96	3	95	19	13	31	35	1.91
335838--335883	23	2.0	23	95	0	83	23	23	30	21	1.99
343470--343553	42	2.0	41	81	9	98	33	15	2	48	1.58
345469--345527	21	2.8	21	92	0	91	27	18	16	37	1.93
349614--349708	36	2.6	37	89	3	156	28	14	11	45	1.80
351349--351410	9	7.1	8	77	14	52	77	3	4	14	1.06
351440--351482	10	4.2	10	79	5	50	74	2	4	18	1.10
351503--351529	14	1.9	14	100	0	54	74	3	7	14	1.18
351549--351587	19	2.1	19	95	4	71	61	2	10	25	1.41
352307--352339	15	2.2	15	89	10	50	6	0	42	51	1.26
352704--352758	26	2.1	26	100	0	110	18	18	27	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352780--352842	19	3.2	19	95	4	108	80	4	0	14	0.86
352866--353193	36	9.3	35	77	12	241	43	7	4	44	1.52
354216--354314	37	2.6	37	80	1	99	30	25	10	34	1.89
354734--354789	26	2.2	25	83	3	67	44	3	0	51	1.18
366567--366693	31	4.1	31	80	6	148	29	18	20	31	1.96
366567--366693	63	2.0	62	87	4	184	29	18	20	31	1.96
371422--371546	31	4.0	31	80	9	137	30	19	19	31	1.96
372738--372773	18	2.0	18	88	0	54	58	13	8	19	1.61
379626--379665	16	2.6	16	96	4	73	42	12	5	40	1.64
380591--380714	35	3.5	35	84	2	160	36	16	23	23	1.95
381350--381467	39	3.1	39	79	15	133	36	14	0	49	1.44
381654--381705	23	2.3	23	96	0	95	34	28	19	17	1.94
382974--382999	2	13.0	2	100	0	52	50	0	0	50	1.00
384408--384507	33	3.1	33	86	2	141	27	13	23	37	1.91
396520--396619	33	3.1	33	82	2	123	28	12	22	38	1.89
406200--406559	43	8.2	43	82	6	406	26	22	18	32	1.97
420070--420130	26	2.3	26	80	8	79	73	1	13	11	1.16
421580--421628	7	6.9	7	80	13	55	71	2	2	24	1.07
421591--421629	11	3.5	11	96	0	69	74	2	0	23	0.94
421580--421628	18	2.7	18	84	12	73	71	2	2	24	1.07
421591--421652	21	3.0	20	84	13	65	74	1	1	22	1.00
421580--421663	18	5.1	16	77	20	59	73	1	2	22	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
421605--421660	10	5.3	10	82	6	58	76	0	1	21	0.87
421698--421919	79	2.9	72	80	15	243	45	6	3	43	1.47
421838--422024	33	5.6	33	73	12	141	45	6	3	44	1.46
421904--421945	2	21.5	2	95	4	77	50	0	0	50	1.00
421698--422093	38	10.9	37	71	17	226	45	7	3	43	1.48
421931--422093	35	4.5	36	75	17	140	43	9	2	44	1.50
422718--424162	84	17.3	84	86	1	1673	23	18	24	33	1.97
422718--424166	167	8.7	168	85	1	1717	23	18	24	33	1.97
422722--424166	251	5.8	252	85	2	1756	23	18	24	33	1.97
427035--427068	3	11.7	3	93	6	61	64	0	0	35	0.94
427836--428096	95	2.7	96	85	5	332	34	18	14	32	1.92
431478--431527	10	5.0	10	83	7	57	32	0	0	68	0.90
431478--431514	5	7.4	5	93	0	65	37	0	0	62	0.96
433864--433888	12	2.1	12	100	0	50	84	0	16	0	0.63
436689--436761	31	2.4	31	88	4	112	23	10	15	50	1.75
438309--438423	50	2.2	52	86	6	155	38	2	8	50	1.47
439972--440011	20	2.0	20	100	0	80	60	0	10	30	1.30
442864--442919	15	3.7	15	87	2	76	57	12	23	7	1.60
447752--447810	2	29.5	2	100	0	118	50	0	0	49	1.00
447862--448073	83	2.5	84	86	6	279	33	17	20	27	1.96
448054--448096	13	3.3	13	80	0	59	39	18	20	20	1.93
450293--450348	17	3.4	17	87	5	78	19	3	10	66	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450914--450977	31	2.0	32	82	17	80	35	0	4	59	1.18
450955--451012	29	2.0	29	87	12	84	46	1	0	51	1.11
451822--451861	20	2.0	20	85	0	53	50	0	2	47	1.14
458521--458560	21	1.9	21	89	0	62	30	2	0	67	1.04
458681--458743	27	2.3	26	81	13	65	30	7	0	61	1.24
458930--458979	24	2.2	22	89	7	73	28	6	10	56	1.56
458936--458986	24	2.1	24	96	0	93	33	7	9	49	1.65
459403--459434	17	1.9	17	93	6	57	12	9	6	71	1.29
460520--460544	2	12.5	2	100	0	50	48	0	0	52	1.00
461949--461986	20	1.9	20	84	10	51	55	5	15	23	1.61
461738--462208	180	2.6	182	88	3	684	42	14	16	26	1.86
462128--462175	20	2.4	19	80	13	60	54	10	16	18	1.70
464394--464446	21	2.5	21	93	0	88	43	7	33	15	1.74
464394--464458	21	3.1	21	88	0	76	43	9	30	16	1.80
464492--464557	33	2.0	33	90	0	105	28	0	48	22	1.51
466350--466398	19	2.6	19	96	0	89	32	2	10	55	1.45
466632--467390	200	3.8	200	94	2	1296	36	15	18	30	1.91
468840--468879	6	6.7	6	82	0	53	42	7	32	17	1.77
468840--468883	12	3.7	12	90	0	70	40	9	31	18	1.81
470116--470685	183	3.1	183	95	1	973	35	14	16	33	1.89
474038--474291	87	2.9	87	94	0	447	33	14	9	42	1.77
474122--474166	23	2.0	23	90	0	72	37	13	8	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474209--474253	23	2.0	23	86	0	63	37	15	8	37	1.79
478832--478907	31	2.4	29	76	18	73	46	11	19	22	1.82
479584--479724	31	4.5	31	98	0	264	39	21	19	19	1.92
482352--482400	25	1.9	25	87	4	71	22	20	22	34	1.97
487163--487232	27	2.6	27	84	2	88	51	18	7	22	1.70
487163--487280	26	4.5	26	70	14	82	47	19	9	23	1.78
490533--490688	64	2.4	64	79	8	174	34	19	19	26	1.95
491066--491146	29	2.8	29	88	3	128	44	14	22	18	1.86
491231--491264	15	2.3	15	100	0	68	14	23	32	29	1.94
497460--497609	64	2.4	64	80	7	180	35	17	18	28	1.94
497998--498078	29	2.8	29	88	3	128	45	16	19	18	1.85
502747--502799	20	2.6	20	81	3	61	26	20	16	35	1.94
507437--507483	13	3.7	13	78	16	53	70	8	2	19	1.24
509678--509751	29	2.5	29	82	8	78	64	4	0	31	1.12
510828--510883	2	28.0	2	100	0	112	50	0	0	50	1.00
511195--511220	2	13.0	2	100	0	52	50	0	0	50	1.00
510862--511488	329	1.9	332	81	7	767	35	11	14	37	1.84
511726--511750	2	12.5	2	100	0	50	48	0	0	52	1.00
511984--512140	80	2.0	80	85	0	215	29	14	22	33	1.93
512288--512392	51	2.1	51	100	0	210	40	20	7	32	1.80
517263--517306	20	2.3	19	84	11	54	77	4	2	15	1.04
518102--518151	21	2.4	21	83	16	68	52	18	8	22	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519388--519464	31	2.5	31	97	0	145	46	14	11	27	1.79
519535--519564	2	15.0	2	100	0	60	50	0	0	50	1.00
523522--523564	2	21.5	2	100	0	86	48	0	0	51	1.00
524773--524827	25	2.2	25	100	0	110	30	10	10	47	1.73
525900--525930	2	15.5	2	100	0	62	51	0	0	48	1.00
525940--525982	21	2.0	21	86	0	59	30	0	11	58	1.34
527005--527053	26	1.9	25	83	4	62	42	0	0	57	0.99
527011--527048	19	2.0	19	85	10	51	36	0	0	63	0.95
528161--528229	3	23.0	3	88	5	104	0	33	1	65	1.02
529389--529414	6	4.3	6	100	0	52	0	30	34	34	1.58

Tables:   1   2   3   4   5   6   7   8   9