genome.fa.s5223.2.7.7.80.10.50.1000.3.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: VEPZ01005223.1 Hibiscus syriacus cultivar Beakdansim tig00011824_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  548742

Tables:   1   2   3   

This is table  3  of  3  ( 346 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)
352899--353001	3	35.0	3	80	11	106	67	0	0	31	0.97
352900--353001	39	2.6	39	85	4	125	68	0	0	30	0.96
352900--353008	36	2.9	37	83	5	132	68	0	0	29	1.01
353384--354161	123	6.3	123	93	1	1247	25	20	16	38	1.92
353384--354161	247	3.2	246	92	2	1258	25	20	16	38	1.92
353384--354161	370	2.1	371	91	1	1260	25	20	16	38	1.92
354543--354600	22	2.6	22	94	0	98	34	13	18	32	1.91
358628--358694	33	2.0	33	88	5	100	19	16	22	41	1.90
359188--359231	9	4.9	9	81	10	54	4	18	0	77	0.94
361663--361749	43	2.0	44	84	6	115	35	21	10	32	1.87
364090--364120	2	15.5	2	100	0	62	51	0	0	48	1.00
365526--365628	3	35.0	3	77	13	90	66	0	0	32	1.05
365527--365618	27	3.5	26	83	5	105	66	1	0	32	0.99
365542--365635	36	2.6	36	84	5	118	69	2	1	27	1.07
368977--369047	30	2.4	30	82	0	97	46	5	2	45	1.41
382868--382912	21	2.1	21	84	8	56	33	17	17	31	1.94
384403--384555	65	2.4	64	85	5	193	28	22	16	32	1.96
391219--391300	29	3.0	28	83	13	84	17	1	23	58	1.45
391240--391304	26	2.4	27	82	17	82	15	0	24	60	1.36
391240--391305	25	2.5	26	80	14	73	15	0	25	59	1.37
391981--392107	65	2.0	65	84	6	168	30	23	14	30	1.95
397323--397372	24	2.0	25	84	3	66	16	12	26	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398372--398498	47	2.8	45	84	5	157	29	20	9	40	1.84
398603--398684	40	2.0	40	97	0	155	32	23	17	26	1.96
402536--402578	20	2.2	20	86	0	59	2	25	0	72	0.97
402543--402658	6	18.8	6	81	10	92	6	18	0	75	1.02
402546--402622	40	1.9	40	84	5	102	3	19	0	76	0.94
405320--405492	47	3.8	45	88	3	231	31	20	6	41	1.79
407832--408362	82	6.5	82	84	5	661	22	15	22	39	1.91
407832--408384	81	6.8	81	81	8	570	21	16	21	40	1.91
408369--408496	55	2.3	55	82	0	148	28	18	22	29	1.98
408495--408687	89	2.2	90	85	2	264	30	17	20	31	1.96
408782--409315	62	8.6	62	82	7	494	34	16	22	27	1.95
408960--409062	29	3.4	29	65	23	77	36	14	19	29	1.91
408782--409249	185	2.5	185	83	1	580	33	15	22	27	1.95
409369--409432	29	2.2	29	88	5	94	29	15	25	29	1.96
409263--409488	91	2.5	91	82	3	269	34	16	21	27	1.95
412622--412825	31	6.5	31	89	0	291	38	21	14	25	1.91
412616--412825	93	2.3	94	89	2	334	39	20	14	25	1.90
421588--421617	2	15.0	2	100	0	60	50	0	0	50	1.00
435842--435910	3	23.3	3	76	8	70	33	0	2	63	1.09
435968--436161	98	2.0	98	90	0	307	36	33	14	15	1.89
437426--437487	30	2.1	30	81	6	72	17	14	9	58	1.63
437785--437820	5	7.0	5	90	3	54	19	5	0	75	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443002--443190	4	48.2	4	79	4	215	43	25	6	24	1.77
443941--444061	51	2.3	52	81	6	131	28	14	10	46	1.78
443965--444073	52	2.1	51	87	1	155	26	11	13	47	1.78
444752--444794	15	2.9	14	80	10	50	30	0	4	65	1.13
448942--448969	14	2.0	14	100	0	56	35	28	0	35	1.58
452891--452925	2	18.0	2	94	5	63	48	0	0	51	1.00
453668--453704	3	12.3	3	100	0	74	64	0	0	35	0.94
457191--457246	28	2.0	28	100	0	112	35	14	32	17	1.90
461383--461416	15	2.3	15	89	0	50	17	20	29	32	1.96
468103--468137	15	2.3	15	95	0	61	20	17	28	34	1.95
468949--469096	75	2.0	75	89	0	224	29	20	16	33	1.95
471089--471150	22	2.8	22	85	0	79	35	12	12	38	1.82
471836--473642	222	8.1	221	89	1	2628	29	17	19	32	1.95
473456--474015	186	3.0	185	90	2	870	27	16	19	36	1.93
480172--480214	11	3.7	11	84	6	50	30	2	0	67	1.03
480186--480214	3	10.0	3	92	7	51	34	0	0	65	0.93
480186--480212	14	1.9	14	100	0	54	33	0	0	66	0.92
483407--483485	27	2.9	27	73	7	79	55	1	3	39	1.26
484019--484836	387	2.1	384	86	3	1126	31	14	12	40	1.85
484873--484914	2	21.0	2	95	0	66	45	0	4	50	1.23
485743--485807	33	2.0	33	84	0	85	10	9	16	63	1.52
485766--485829	23	2.7	24	80	4	76	12	12	15	59	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491177--491238	32	1.9	32	93	0	106	35	1	30	32	1.68
496497--496716	76	3.0	71	82	8	242	31	0	10	57	1.37
496690--496744	21	2.8	20	81	10	60	29	1	12	56	1.47
497313--497355	18	2.4	18	92	0	68	20	6	0	72	1.08
497379--497420	15	2.8	16	85	7	61	26	9	0	64	1.24
497378--497428	15	3.4	16	76	10	54	21	13	0	64	1.28
502911--502974	33	1.9	33	81	6	76	18	9	4	67	1.37
502967--503019	5	10.6	5	76	8	54	22	5	0	71	1.06
506837--506900	21	3.0	21	81	4	74	15	25	39	20	1.92
510370--510409	21	1.9	21	85	10	55	35	10	2	52	1.48
514125--514314	76	2.6	71	86	5	238	30	0	12	56	1.40
514247--514289	15	2.9	15	79	3	52	34	0	6	58	1.25
514253--514295	15	2.9	14	82	6	50	32	0	9	58	1.30
514908--514949	18	2.3	18	91	0	66	21	7	0	71	1.09
514995--515046	18	2.9	18	75	11	52	25	3	0	71	1.03
516545--516576	2	16.0	2	100	0	64	50	0	0	50	1.00
521852--522033	20	8.6	20	76	11	168	37	18	20	23	1.94
521840--522013	88	2.0	89	87	1	251	36	18	19	25	1.94
521940--522033	41	2.3	41	87	1	127	39	18	21	21	1.93
522580--522628	19	2.5	20	83	3	73	44	22	20	12	1.84
522656--522759	19	5.6	19	76	14	74	11	24	21	43	1.85
522656--522768	20	6.1	19	78	13	128	11	23	19	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522661--522768	33	2.9	39	85	9	129	11	23	19	46	1.81
524822--525014	20	9.6	20	88	2	246	33	18	21	25	1.96
524823--525160	20	16.7	20	82	4	213	30	18	20	30	1.96
525005--525080	21	3.7	21	85	3	118	19	21	17	42	1.90
524985--525117	41	3.3	41	89	1	187	23	18	18	39	1.92
524944--525117	61	2.9	61	82	3	192	27	18	18	36	1.94
525107--525159	21	2.5	21	84	0	70	33	18	26	20	1.96
530191--530244	26	2.1	26	92	0	90	37	29	11	22	1.89
537667--537726	21	2.9	20	75	20	61	26	35	25	13	1.93
542216--542241	12	2.2	12	100	0	52	53	0	7	38	1.30
542493--542533	21	2.0	21	85	9	57	34	4	0	60	1.18
546393--546467	19	3.9	19	92	0	123	32	25	16	26	1.96
546493--546666	20	8.6	20	71	12	131	32	25	17	24	1.97
546593--546687	41	2.3	40	85	5	129	33	24	15	26	1.95
546532--546666	61	2.2	61	90	2	209	31	27	17	23	1.96
546831--546877	22	2.1	22	100	0	94	23	44	12	19	1.85
547256--547372	20	6.2	20	70	11	68	20	18	21	39	1.93
547255--547394	73	1.9	73	85	2	192	23	17	19	40	1.91

Tables:   1   2   3

The End!