genome.fa.s4540.2.7.7.80.10.50.1000.3.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: VEPZ01004540.1 Hibiscus syriacus cultivar Beakdansim tig00010050_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  429677

Tables:   1   2   3   

This is table  3  of  3  ( 323 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)
333996--334031	14	2.6	14	90	0	54	27	0	27	44	1.55
334138--334194	19	3.3	18	72	23	59	43	21	22	12	1.85
334191--334274	19	4.6	19	68	15	61	14	21	20	44	1.86
336541--336577	12	3.1	12	100	0	74	0	27	0	72	0.84
336765--336819	24	2.3	24	83	0	65	36	18	16	29	1.92
337590--337641	21	2.5	21	87	3	70	38	17	23	21	1.93
337630--337708	20	3.9	20	77	9	70	35	22	18	22	1.96
337931--338018	20	4.4	20	78	5	106	38	23	20	17	1.93
338050--338103	14	3.5	14	77	22	63	11	20	20	48	1.80
338032--338102	33	2.2	33	84	0	88	19	19	21	39	1.93
338230--338267	14	2.7	15	84	12	53	47	18	0	34	1.49
340190--340247	14	3.9	14	79	16	71	48	24	17	10	1.78
340174--340252	32	2.4	33	95	2	142	46	22	18	11	1.81
340281--340338	14	3.9	14	79	16	71	10	17	24	48	1.78
340264--340354	32	2.8	33	94	3	166	12	18	21	47	1.81
340339--340382	20	2.2	20	84	4	54	18	22	20	38	1.93
340875--340919	18	2.5	18	88	0	72	13	15	44	26	1.83
342239--342297	20	3.0	20	87	0	73	44	22	18	15	1.87
342546--342589	22	2.0	22	95	0	79	18	15	45	20	1.85
342757--342894	61	2.3	61	84	0	186	24	17	23	34	1.96
342757--342891	20	6.7	20	78	7	112	25	17	23	33	1.96
342757--342912	61	2.6	61	81	2	152	23	19	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342941--342981	21	2.0	21	85	0	55	34	29	17	19	1.94
346683--346727	22	2.1	22	88	12	67	44	2	0	53	1.13
346699--346795	40	2.4	42	81	11	121	53	2	0	44	1.12
347937--347990	23	2.3	23	96	0	99	27	7	35	29	1.84
348497--348553	21	2.7	21	97	0	105	24	19	21	35	1.96
348545--348641	44	2.2	44	81	7	108	36	19	17	26	1.94
348755--348793	14	2.8	14	100	0	78	51	7	7	33	1.59
349432--349480	18	2.7	18	96	0	89	18	24	28	28	1.98
349441--349502	23	3.0	20	88	11	83	19	22	29	29	1.98
360202--360326	62	2.0	62	90	3	198	20	18	23	38	1.93
360202--360310	31	3.5	31	97	0	200	19	19	22	39	1.93
369067--369120	2	27.0	2	100	0	108	50	0	0	50	1.00
369200--369225	2	13.0	2	100	0	52	50	0	0	50	1.00
371752--371950	99	2.0	99	100	0	398	40	17	14	28	1.88
377252--377315	32	2.0	32	93	0	110	29	20	23	26	1.99
380018--380091	27	2.7	27	95	0	139	17	14	2	64	1.40
381304--381356	15	3.6	14	79	16	54	60	3	0	35	1.15
381310--381371	31	2.1	27	85	11	79	66	3	0	30	1.08
381310--381371	13	4.3	13	77	18	52	66	3	0	30	1.08
381333--381370	14	2.8	14	88	4	51	71	2	0	26	1.00
381331--381373	14	3.2	13	77	9	50	69	6	0	23	1.12
381755--381845	36	2.9	30	72	22	80	53	1	2	42	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
381860--381914	19	2.8	19	83	8	74	63	0	0	36	0.95
381861--381924	19	3.3	19	78	20	69	60	0	0	39	0.97
381783--381924	40	3.6	39	76	20	113	55	1	0	42	1.13
381980--382090	22	5.2	22	75	13	92	54	0	0	45	1.06
381983--382089	40	2.5	43	82	11	116	54	0	0	44	1.06
382031--382080	19	2.5	19	81	15	57	56	2	0	42	1.11
382017--382087	21	3.4	21	77	16	67	56	1	0	42	1.08
382543--382576	17	2.0	17	94	0	59	50	0	2	47	1.16
382567--382640	19	3.8	20	69	16	57	39	1	2	56	1.22
382810--382852	23	1.9	23	85	4	61	30	2	0	67	1.03
392621--392748	68	1.9	69	81	4	161	17	21	21	39	1.92
397214--397402	60	3.2	60	78	6	186	34	17	5	42	1.72
397534--397692	59	2.7	57	81	6	158	45	3	18	32	1.67
398249--398309	23	2.6	23	82	7	70	22	8	19	49	1.75
404210--404260	26	1.9	27	84	11	70	52	19	7	19	1.70
405768--405826	9	6.2	9	75	11	55	27	59	5	8	1.48
405809--405910	24	4.2	24	67	5	71	22	53	4	18	1.63
405840--405993	54	3.1	48	81	12	148	22	53	9	14	1.69
405805--405909	36	2.9	36	73	0	111	23	54	4	17	1.62
405878--406019	54	2.6	54	96	0	257	19	54	11	14	1.71
405989--406582	24	24.6	24	67	9	269	22	53	6	17	1.66
405932--406449	120	4.3	120	97	2	941	22	53	7	16	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405989--406582	48	12.3	48	75	6	303	22	53	6	17	1.66
406320--406540	72	3.1	72	92	0	343	23	53	4	18	1.64
406440--406497	12	4.8	12	73	0	53	25	53	0	20	1.46
406619--406707	12	7.4	12	75	0	79	30	57	3	8	1.46
406624--406717	24	3.9	24	81	5	102	29	58	3	8	1.43
406626--406717	48	1.9	48	86	4	132	30	58	3	7	1.42
408064--408109	2	23.0	2	100	0	92	50	0	0	50	1.00
414520--414549	11	2.8	11	95	5	53	0	76	0	23	0.78
415937--415977	21	2.0	20	85	9	55	19	9	21	48	1.77
419838--419946	52	2.1	52	92	0	182	49	5	4	40	1.46
420586--420673	27	3.3	27	75	9	90	61	1	12	25	1.38
420947--421034	37	2.4	38	79	12	94	71	3	4	20	1.18
421134--421162	2	14.5	2	100	0	58	51	0	0	48	1.00
421171--421210	21	1.9	21	85	10	55	57	2	10	30	1.45
422587--423425	105	8.0	105	94	2	1413	22	18	25	34	1.96
424160--424271	57	1.9	59	84	12	153	12	21	11	54	1.69
427824--427877	26	2.0	27	85	3	74	38	18	18	24	1.93

Tables:   1   2   3

The End!