genome.fa.s9460.2.7.7.80.10.50.1000.2.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: 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  2  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)
222238--222294	27	2.1	27	93	0	96	43	19	7	29	1.77
243591--243640	25	2.0	24	85	11	66	34	4	0	62	1.14
247477--247503	2	13.5	2	100	0	54	48	0	0	51	1.00
247612--247663	15	3.4	14	76	23	52	48	0	1	50	1.12
247610--247671	31	2.0	30	90	3	97	48	0	1	50	1.10
249169--249209	16	2.6	16	92	3	66	39	12	19	29	1.88
262505--262575	31	2.3	31	82	4	81	28	21	8	42	1.82
267530--267567	20	1.9	20	94	0	67	13	2	10	73	1.19
281017--281056	21	1.9	21	89	0	62	10	25	40	25	1.86
281037--281099	20	2.9	21	79	9	65	15	25	34	23	1.95
284898--284937	21	1.9	21	85	10	55	35	10	2	52	1.48
287615--288402	425	1.9	421	96	1	1461	18	15	18	47	1.83
291358--291405	20	2.4	20	92	0	78	31	14	16	37	1.89
292874--292919	19	2.4	19	83	16	60	56	4	6	32	1.45
293651--293799	75	2.0	76	88	6	223	28	2	9	59	1.40
294436--294483	23	2.2	23	88	7	73	22	2	0	75	0.91
300151--300190	11	3.9	10	90	6	55	12	5	2	80	0.98
300296--300358	30	2.1	30	90	0	99	41	15	22	20	1.90
301000--301041	20	2.1	20	95	0	75	50	30	0	19	1.48
302042--302240	68	2.8	73	84	8	239	28	1	12	58	1.43
302487--302527	19	2.2	19	95	0	73	7	21	12	58	1.58
302853--302893	21	1.9	22	90	5	66	19	4	0	75	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
303027--303065	21	1.9	20	84	5	51	46	7	7	38	1.61
303257--303303	19	2.4	19	80	13	51	51	4	8	36	1.52
303262--303304	20	2.2	20	83	8	52	58	4	9	27	1.49
322634--322671	20	1.9	20	94	0	67	73	10	2	13	1.19
326256--326348	12	7.8	12	71	9	73	48	18	15	18	1.81
326256--326362	24	4.5	24	79	6	101	48	17	15	17	1.81
326252--326362	48	2.3	48	87	6	154	48	17	15	18	1.81
327937--327975	17	2.2	19	86	9	55	33	15	5	46	1.68
330919--331001	12	6.9	12	71	15	64	48	16	15	19	1.82
330919--331015	48	2.0	48	84	7	126	48	16	16	18	1.82
330919--331015	24	4.0	25	78	12	96	48	16	16	18	1.82
332550--332588	17	2.2	19	86	9	55	33	15	5	46	1.68
333429--333474	18	2.6	18	96	0	83	8	19	52	19	1.72
333423--333452	13	2.3	13	94	0	51	13	20	46	20	1.83
334638--334753	60	1.9	60	82	0	142	37	12	15	34	1.86
334848--334905	27	2.2	26	81	9	64	53	6	6	32	1.54
334863--334917	26	2.1	25	83	12	67	56	9	5	29	1.53
340268--340306	6	6.5	6	100	0	78	0	64	0	35	0.94
341485--341563	34	2.4	33	83	8	90	39	0	1	59	1.06
341475--341563	34	2.7	31	79	6	88	39	0	2	58	1.11
341703--341756	17	3.2	17	72	0	54	31	0	3	64	1.11
346212--346264	21	2.5	21	93	0	88	28	30	22	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
346283--346531	21	12.1	21	68	11	140	22	17	24	35	1.95
346298--346556	40	6.3	42	89	3	386	22	17	23	37	1.94
346298--346556	82	3.2	81	88	3	394	22	17	23	37	1.94
346299--346556	122	2.1	124	91	1	412	22	17	23	37	1.94
346441--346552	21	5.4	21	71	19	85	22	16	22	38	1.93
346651--346675	6	4.2	6	100	0	50	36	48	16	0	1.46
347293--347418	21	6.1	19	73	15	81	35	23	19	21	1.96
347292--347424	42	3.2	42	93	0	212	35	22	20	21	1.96
355229--355267	20	2.0	20	84	0	51	46	2	0	51	1.14
355259--355342	12	7.1	12	73	16	52	63	5	1	29	1.26
355257--355341	11	8.3	10	71	13	50	62	5	1	30	1.26
355656--355691	2	18.0	2	100	0	72	50	0	0	50	1.00
356978--357061	3	28.0	3	79	13	93	63	0	0	36	0.95
356982--357061	28	2.9	28	83	5	101	63	0	0	36	0.94
357423--357740	122	2.7	115	80	10	342	27	18	14	39	1.90
358538--358859	22	14.6	22	90	0	482	36	13	16	33	1.88
363109--363243	72	1.9	72	93	0	234	35	20	20	22	1.96
365773--365803	16	2.0	15	93	6	53	64	9	12	12	1.50
367184--367218	17	2.0	18	94	5	63	68	0	14	17	1.21
367819--367857	20	2.0	20	84	0	51	46	2	0	51	1.14
368233--368257	2	12.5	2	100	0	50	52	0	0	48	1.00
369033--369076	18	2.3	19	80	15	54	2	11	31	54	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369606--369647	3	14.0	3	85	9	59	64	0	0	35	0.94
369599--369647	19	2.7	18	84	9	73	65	0	0	34	0.93
374832--374882	25	2.0	27	84	7	70	31	5	5	56	1.47
375180--375338	77	2.1	78	86	5	225	39	9	5	45	1.58
375499--375540	18	2.3	18	100	0	84	47	11	4	35	1.61
376816--376856	22	1.9	22	95	5	66	51	12	0	36	1.40
376808--377544	54	13.8	54	71	16	382	52	11	0	35	1.38
376840--377050	32	7.5	31	73	26	172	52	10	0	36	1.37
376904--376946	22	2.0	22	100	0	86	51	9	0	39	1.34
376906--376954	22	2.2	22	88	3	71	55	10	0	34	1.34
376958--377018	22	2.8	22	100	0	122	50	13	0	36	1.41
377158--377507	32	12.4	32	75	22	308	52	12	0	35	1.39
377056--377484	134	3.2	134	89	7	659	52	13	0	34	1.40
377190--377232	22	2.0	22	95	0	77	48	13	0	37	1.43
377192--377240	22	2.2	22	85	3	62	53	14	0	32	1.41
377388--377452	22	3.0	22	97	0	121	50	12	0	36	1.40
377212--377507	140	2.1	142	94	2	524	52	12	0	35	1.39
377455--377589	15	8.5	14	72	21	90	54	4	0	41	1.21
377530--377589	30	2.0	30	96	0	111	51	0	0	48	1.00
384130--384168	19	2.1	19	90	0	60	12	35	15	35	1.86
387483--387571	45	2.0	45	97	0	169	40	11	22	25	1.87
387932--387985	20	2.7	19	75	8	63	33	31	18	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387972--388204	20	11.4	20	67	13	84	37	22	18	21	1.94
388035--388305	20	13.5	20	77	7	228	39	23	18	19	1.92
391778--391805	14	2.0	14	100	0	56	42	21	21	14	1.88
391779--391812	14	2.4	14	90	0	50	44	20	23	11	1.84
391730--391823	33	2.8	34	79	6	102	42	22	21	13	1.88
391817--392015	33	5.8	33	87	6	290	44	19	23	12	1.84
391792--392017	72	3.2	68	81	12	271	43	19	23	12	1.86
391792--392019	105	2.2	105	96	0	420	44	19	23	12	1.85
391730--391928	86	2.3	87	83	4	269	43	21	22	13	1.87
392212--392248	14	2.6	14	91	0	65	45	21	0	32	1.52
395663--395739	20	3.9	19	83	6	100	45	18	23	12	1.84
395808--395920	40	2.8	40	84	7	142	12	19	19	48	1.80
395808--395923	19	5.8	20	87	3	146	12	18	18	50	1.78
396484--396637	20	7.6	20	86	2	191	20	20	24	35	1.96
396484--396637	61	2.5	60	85	3	209	20	20	24	35	1.96
396481--396678	40	4.9	40	81	8	195	21	19	23	35	1.95
396484--396678	61	3.2	60	78	10	200	20	19	24	35	1.95
396484--396678	102	1.9	101	86	5	277	20	19	24	35	1.95
396734--396785	20	2.6	20	100	0	104	17	15	30	36	1.91
409847--409882	14	2.6	14	95	0	63	5	19	2	72	1.17
419227--419269	22	2.0	21	86	8	61	74	0	0	25	0.82
419394--419434	14	3.0	14	82	10	50	63	2	0	34	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419493--419666	70	2.5	70	98	0	330	50	19	14	15	1.78
419799--419833	16	2.3	15	95	5	61	17	2	17	62	1.44
424373--424441	23	3.0	23	89	0	102	26	26	27	20	1.99
424462--424670	104	2.0	104	94	0	364	36	24	12	26	1.91
427803--427848	24	1.9	24	82	8	58	43	17	2	36	1.61
429410--429455	23	2.0	23	86	0	65	30	26	21	21	1.99
429471--429685	103	2.1	103	94	0	376	36	23	13	26	1.93
430353--432305	979	2.0	979	98	0	3753	31	22	9	36	1.86
433421--433726	63	4.9	63	69	15	184	45	9	4	39	1.59
433422--433774	190	1.9	191	85	4	498	45	9	5	39	1.60

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