genome.fa.s9635.2.7.7.80.10.50.1000.2.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: VEPZ01009635.1 Hibiscus syriacus cultivar Beakdansim tig00117038_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1009897

Tables:   1   2   3   4   

This is table  2  of  4  ( 428 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)
243906--243991	42	2.0	42	95	0	154	55	20	9	13	1.66
246231--246370	70	2.0	70	97	0	262	35	30	15	18	1.92
253049--253090	18	2.4	17	88	8	57	0	9	9	80	0.89
253049--253092	20	2.3	20	88	7	65	0	9	9	81	0.87
263482--263563	24	3.4	24	73	9	78	46	15	17	20	1.84
265347--265429	23	3.6	23	80	8	105	27	25	26	20	1.99
265672--265735	31	2.1	31	97	2	121	32	25	4	37	1.77
266677--266705	9	3.3	9	90	9	51	55	0	34	10	1.34
267591--267648	29	2.0	29	86	3	82	34	15	6	43	1.74
279291--279330	19	2.2	19	86	4	55	70	2	27	0	1.01
281276--281347	30	2.4	31	79	6	85	36	15	6	41	1.74
281276--281366	28	3.0	29	79	9	94	32	14	8	43	1.76
282645--282676	15	2.1	16	94	5	57	25	0	0	75	0.81
283682--283724	22	2.0	22	95	0	77	37	9	23	30	1.86
289288--289321	17	2.0	17	100	0	68	17	23	11	47	1.81
294292--294715	234	1.8	234	83	7	574	40	11	16	31	1.85
294812--295063	126	2.0	126	98	0	486	34	10	14	40	1.80
295067--295128	28	2.2	28	82	0	70	27	4	27	40	1.76
295089--295132	21	2.1	21	86	0	61	25	0	29	45	1.54
296156--296202	20	2.3	20	81	3	58	23	31	10	34	1.89
298513--298601	32	2.8	32	85	0	124	42	16	11	29	1.83
299592--299848	47	5.5	47	94	0	419	32	20	7	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309629--309743	61	1.9	61	85	3	160	28	29	18	23	1.98
313457--313519	1	63.0	1	74	0	54	3	9	0	87	0.65
313450--313498	11	4.2	11	84	10	62	6	4	2	87	0.72
313449--313498	17	2.9	17	84	0	55	8	4	2	86	0.78
313457--313541	20	4.1	21	73	19	72	4	10	1	83	0.84
313457--313526	24	3.0	24	85	10	83	2	10	1	85	0.76
313458--313506	16	2.9	17	84	6	64	4	8	0	87	0.65
316357--316602	47	5.3	47	91	1	386	32	19	7	40	1.80
316677--316793	61	1.9	61	82	3	146	30	28	15	25	1.96
317761--317826	29	2.3	29	78	5	71	34	19	7	37	1.80
322641--322695	21	2.6	21	94	0	92	30	20	23	25	1.98
323186--324919	866	2.0	866	99	0	3432	37	15	19	27	1.92
327844--327883	21	2.0	20	90	5	62	37	25	12	25	1.91
341441--341481	22	1.9	21	85	5	55	60	12	21	4	1.50
342414--342484	34	2.1	34	94	0	124	33	18	8	39	1.81
350602--350648	17	2.8	17	83	3	60	55	19	0	25	1.43
356312--356345	14	2.4	14	90	0	50	58	2	2	35	1.28
356467--356498	13	2.4	14	85	15	50	56	0	0	43	0.99
357286--357424	42	3.3	43	79	7	151	27	17	16	38	1.91
357286--357425	44	3.3	43	81	5	144	27	17	17	38	1.91
357310--357438	44	3.0	44	81	3	154	31	15	15	37	1.89
357668--357736	21	3.3	21	84	10	88	49	14	33	2	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
366125--366176	28	1.9	27	88	7	79	21	3	5	69	1.26
366652--367272	309	2.0	311	99	0	1228	37	19	9	34	1.83
367717--367822	44	2.5	43	81	4	117	33	16	13	36	1.87
367748--367844	44	2.2	44	81	3	106	32	13	13	40	1.83
368752--368882	64	2.0	64	100	0	262	25	12	18	43	1.85
370502--370534	13	2.4	14	85	10	50	54	0	0	45	0.99
381392--381428	19	1.9	19	88	0	56	18	5	18	56	1.60
384454--384514	17	3.5	17	88	2	77	32	14	21	31	1.93
389001--389027	2	13.5	2	100	0	54	51	0	0	48	1.00
401789--401876	46	1.9	46	81	9	108	45	10	0	44	1.37
405279--405343	33	2.0	33	90	0	103	23	24	29	23	1.99
405520--405597	39	2.0	39	85	5	104	26	28	26	17	1.98
410952--411104	77	2.0	79	81	10	181	44	7	5	42	1.56
416417--416454	20	1.9	20	100	0	76	26	21	21	31	1.98
416829--416907	20	3.6	20	69	26	61	43	11	26	18	1.84
416814--417028	47	4.6	47	94	1	360	46	14	20	19	1.84
416849--416983	27	5.6	27	67	26	104	44	14	21	19	1.86
416989--417142	27	6.2	27	71	19	147	46	14	19	19	1.83
416941--417102	74	2.2	74	93	0	270	46	15	19	19	1.84
416896--417142	121	2.0	121	96	0	449	46	14	19	19	1.84
417015--417178	47	3.5	47	95	0	292	43	14	21	20	1.87
416849--417178	168	2.0	168	93	0	570	45	14	20	19	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419101--419172	37	1.9	37	88	5	110	23	15	22	38	1.92
427446--427478	13	2.6	13	85	4	50	0	36	0	63	0.95
428747--428818	37	1.9	37	88	5	110	25	13	22	38	1.91
430150--430304	64	2.5	62	81	9	174	30	21	17	30	1.96
433054--433086	13	2.6	13	90	4	50	0	33	0	66	0.92
434349--434420	37	1.9	37	88	5	110	25	13	22	38	1.91
435726--435885	65	2.5	64	83	5	207	31	21	16	30	1.95
443994--444078	23	3.6	23	87	3	116	25	25	28	20	1.99
447906--447945	21	1.9	21	85	10	55	35	10	2	52	1.48
449895--449992	45	2.2	45	83	7	128	31	16	24	27	1.96
451496--451525	15	2.0	15	100	0	60	26	0	46	26	1.53
462712--462745	2	17.0	2	100	0	68	50	0	0	50	1.00
481578--482424	426	2.0	427	91	1	1367	31	16	17	34	1.92
486652--486695	20	2.2	20	83	0	52	29	13	15	40	1.86
488886--489136	94	2.7	93	81	4	281	37	17	15	29	1.91
489124--489182	21	2.6	24	76	17	63	33	20	8	37	1.83
492596--492699	35	3.0	35	97	1	192	26	13	16	43	1.85
493098--493136	18	2.2	18	86	9	53	46	7	0	46	1.31
501805--501951	43	3.5	42	75	9	140	24	12	4	57	1.54
501958--502193	129	1.8	126	80	6	278	26	18	8	47	1.76
505129--505380	45	5.6	45	90	1	380	29	19	9	40	1.84
505897--505952	22	2.7	20	81	10	67	26	28	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507704--507798	13	7.5	13	72	11	72	58	1	0	40	1.05
507704--507781	3	25.0	3	77	12	59	60	0	0	39	0.97
508412--508507	42	2.3	42	82	7	124	30	21	21	26	1.99
507943--508876	248	3.7	247	80	8	946	35	16	15	33	1.90
510865--510986	49	2.3	52	82	9	135	4	13	2	78	1.01
510881--510952	19	3.6	19	77	14	56	5	9	2	81	0.94
510884--510958	31	2.5	30	78	8	80	5	10	2	81	0.95
510878--510984	33	3.1	33	72	15	58	5	14	1	78	1.01
510899--511001	19	5.1	19	75	15	64	8	12	0	77	1.03
510872--510963	15	5.9	15	72	18	64	4	13	2	80	0.95
511684--511756	33	2.2	33	82	2	85	31	9	26	32	1.88
511699--511774	33	2.3	33	84	2	91	34	5	30	30	1.80
515443--515505	32	1.9	34	83	6	85	36	19	7	36	1.81
517661--518409	373	2.0	375	99	0	1475	38	21	15	24	1.92
519397--519491	3	31.0	3	75	12	86	62	0	1	36	1.03
524770--525141	120	3.1	120	94	0	645	49	20	11	19	1.77
526213--526278	28	2.3	29	82	12	84	50	1	0	48	1.10
526225--526284	15	4.2	15	81	10	81	53	0	0	46	1.00
526277--526459	31	5.7	30	71	21	115	48	4	4	42	1.44
526341--526430	42	2.2	39	86	9	117	46	3	5	44	1.43
526374--526428	20	2.8	20	72	22	53	49	3	1	45	1.30
526319--526415	21	4.7	20	71	13	70	45	4	5	45	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526281--526452	64	2.6	65	80	11	183	48	4	5	42	1.44
526445--526544	22	4.6	22	77	12	91	49	8	5	38	1.54
526471--526523	21	2.5	20	82	8	70	49	5	5	39	1.50
526563--526653	22	4.3	23	67	30	60	43	7	6	41	1.59
526600--526680	20	4.1	20	74	18	62	40	8	7	43	1.63
526607--526649	15	2.6	15	85	14	50	41	4	6	46	1.51
526566--526688	59	2.0	60	84	9	162	43	8	7	41	1.62
526651--526724	37	2.1	36	84	5	96	39	10	9	40	1.73
527126--527213	2	45.0	2	79	13	85	44	5	1	48	1.33
527136--527243	53	2.1	52	81	11	127	45	6	0	47	1.35

Tables:   1   2   3   4