genome.fa.s4578.2.7.7.80.10.50.1000.3.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: VEPZ01004578.1 Hibiscus syriacus cultivar Beakdansim tig00010204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1248949

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 816 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)
336722--336830	54	2.1	51	88	8	157	33	0	3	62	1.13
336836--337435	298	2.0	300	98	1	1154	29	13	24	32	1.93
337370--337564	97	2.0	97	100	0	390	30	11	25	32	1.91
337382--337586	97	2.1	97	93	0	338	32	12	24	30	1.93
338786--338846	21	2.9	21	92	0	104	22	22	18	36	1.95
338786--338861	21	3.5	21	85	3	80	25	22	17	35	1.95
338857--338905	19	2.5	21	78	18	61	38	16	6	38	1.73
341523--341576	21	2.6	21	87	0	81	27	16	16	38	1.90
341626--341718	21	4.4	21	94	0	168	23	19	18	38	1.93
342587--342636	21	2.4	21	86	0	64	32	20	24	24	1.98
344114--344165	6	8.8	6	82	4	61	51	13	0	34	1.41
344120--344171	18	2.9	18	85	2	61	50	13	0	36	1.42
348105--348212	24	4.7	24	86	10	136	25	15	20	37	1.92
349398--349473	37	2.0	38	97	2	145	51	5	26	17	1.66
352780--352851	21	3.3	21	73	7	72	37	26	15	20	1.92
352933--352967	17	2.1	17	89	10	54	28	8	2	60	1.41
353226--353272	14	3.4	14	76	5	51	40	19	6	34	1.77
355688--355773	25	3.5	24	77	17	88	51	24	2	22	1.60
356436--356471	2	18.0	2	100	0	72	50	0	0	50	1.00
359135--359217	31	2.7	31	77	7	96	25	27	27	19	1.99
362237--362269	2	16.5	2	100	0	66	51	0	0	48	1.00
363779--363819	20	2.0	20	86	9	57	70	2	17	9	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370204--370296	20	5.0	20	70	15	65	34	4	15	46	1.65
370188--370295	53	2.0	53	96	0	198	31	4	13	50	1.63
374868--374906	20	2.0	20	89	0	60	35	2	17	43	1.63
374852--374952	53	1.9	53	95	0	184	31	4	15	47	1.67
374921--374980	20	3.0	20	90	0	93	40	6	15	38	1.73
375573--375646	23	3.3	21	78	14	69	24	31	22	21	1.99
377924--377998	38	2.0	38	94	2	134	34	5	26	33	1.79
378330--378369	21	1.9	21	84	0	53	27	32	20	20	1.97
380058--380102	2	22.5	2	100	0	90	51	0	0	48	1.00
380566--380609	23	1.9	23	82	17	56	47	9	0	43	1.35
380692--380716	12	2.1	12	100	0	50	68	8	0	24	1.16
381301--381632	171	1.9	172	91	1	542	28	28	17	25	1.97
387137--387180	5	8.4	5	80	9	52	20	2	2	75	1.03
393245--393305	30	2.0	30	90	0	95	24	19	18	37	1.94
397141--397248	37	2.9	37	90	0	162	41	14	11	32	1.81
397848--397872	2	12.5	2	100	0	50	48	0	0	52	1.00
397906--397974	9	7.1	10	76	11	72	13	10	0	76	1.01
397917--397951	11	3.3	11	96	4	63	8	8	0	82	0.83
397917--398022	21	5.0	21	73	14	74	17	8	0	73	1.07
397933--398017	17	5.2	16	67	12	57	18	8	0	72	1.08
397897--397974	30	2.7	27	75	16	68	15	8	0	75	1.03
397868--397994	53	2.3	55	77	13	136	18	7	0	74	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397940--397999	32	1.9	31	86	10	86	20	8	0	71	1.11
397892--398021	53	2.5	52	80	7	129	17	8	0	73	1.07
400848--400892	12	3.6	13	85	8	58	73	6	20	0	1.05
401770--401826	24	2.4	24	80	14	64	33	14	5	47	1.66
401983--402054	32	2.2	32	85	0	99	31	15	22	30	1.94
402577--402870	109	2.7	108	83	6	403	35	21	15	27	1.94
404010--404150	37	3.8	37	90	3	221	39	15	13	31	1.86
407241--407266	3	8.7	3	100	0	52	65	0	0	34	0.93
407593--407825	129	1.8	129	81	3	290	34	16	24	24	1.96
408142--408591	115	3.9	117	91	1	708	26	22	14	37	1.92
408142--408591	231	1.9	232	90	2	706	26	22	14	37	1.92
408539--408710	92	1.8	93	86	2	247	24	22	17	36	1.95
410127--410174	22	2.2	22	81	7	53	35	25	14	25	1.94
410277--410453	52	3.4	52	88	1	266	24	22	15	37	1.93
411934--411967	15	2.3	15	94	0	59	5	8	5	79	1.05
411959--412218	1	260.0	1	90	0	403	0	4	0	95	0.33
411932--412235	95	3.3	92	89	5	436	1	5	0	92	0.48
413914--413943	15	2.0	15	93	0	51	23	13	26	36	1.92
413919--413952	15	2.3	15	89	0	50	17	20	29	32	1.96
418338--418362	3	8.3	3	100	0	50	64	0	0	36	0.94
434966--435016	17	3.1	17	82	5	68	25	25	31	17	1.97
435016--435072	20	3.0	20	85	7	66	12	24	45	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
436922--436953	13	2.5	13	94	0	55	31	0	15	53	1.43
451041--451183	75	1.9	75	80	0	169	41	15	9	32	1.80
457219--457575	187	1.9	184	82	4	439	28	18	12	40	1.87
467109--467152	23	1.9	23	100	0	88	45	11	20	22	1.83
485997--486216	39	5.6	39	85	2	287	43	14	5	36	1.67
486283--486479	58	3.4	59	84	5	233	42	13	8	35	1.75
486432--486523	44	2.1	44	89	0	139	35	16	8	39	1.79
486373--486578	102	2.0	103	82	6	249	38	15	9	36	1.80
486730--486939	45	4.7	45	87	4	273	39	16	9	34	1.80
490187--490404	102	2.1	101	80	9	239	39	11	19	28	1.87
490300--490738	65	6.6	65	72	14	331	41	11	20	27	1.86
490353--490801	36	13.2	36	70	16	269	40	11	20	27	1.86
490369--490801	134	3.2	134	89	1	632	40	11	20	27	1.86
490712--490771	19	3.3	18	68	17	52	46	5	18	30	1.70
492121--492372	95	2.6	99	85	7	313	31	19	17	31	1.95
495311--495354	21	2.1	21	87	8	63	65	0	15	18	1.27
498898--499074	31	5.7	31	76	4	151	28	26	27	17	1.98
498906--499057	62	2.5	62	84	2	189	28	26	26	17	1.98
498906--499074	62	2.7	61	81	7	187	28	26	27	17	1.97
500132--500165	16	2.1	16	94	0	59	32	5	14	47	1.69
503663--503828	31	5.4	30	74	9	113	29	30	24	15	1.96
503654--503770	62	1.9	62	82	7	148	29	29	24	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511826--512284	229	2.0	230	96	3	863	38	6	14	39	1.72
515180--515251	35	2.1	35	94	0	126	34	9	15	40	1.80
515298--515374	21	3.7	21	81	6	84	35	20	14	29	1.92
524883--524934	21	2.5	21	100	0	104	23	17	30	28	1.97
524904--524997	41	2.3	41	88	0	143	18	19	25	37	1.94
524968--525096	19	6.5	19	84	11	104	15	20	20	43	1.88
524882--525020	62	2.3	61	83	3	172	18	17	25	38	1.92
525030--525096	19	3.5	19	100	0	134	19	20	17	41	1.90
524882--525064	61	3.0	60	81	4	170	18	18	23	39	1.92
525087--525140	22	2.5	22	100	0	108	16	18	27	37	1.93
525894--525964	19	3.4	19	68	20	61	36	22	21	19	1.95
525894--525985	44	2.2	41	92	5	148	35	22	21	19	1.96
525894--526006	44	2.6	43	87	8	142	38	22	21	17	1.93
534267--534317	24	2.0	24	85	11	66	47	3	1	47	1.32
535709--535756	3	16.7	3	79	16	57	60	0	0	39	0.97
535711--535763	20	2.7	19	85	5	70	58	1	0	39	1.09
536559--536801	121	2.0	121	100	0	486	29	13	13	42	1.84
542542--542597	19	2.8	20	79	12	71	33	28	16	21	1.95
542542--542675	42	3.3	41	78	13	127	31	28	13	26	1.94
542542--542726	20	9.0	21	74	11	125	31	27	12	28	1.93
542542--542726	41	4.5	41	78	9	139	31	27	12	28	1.93
542626--542765	20	6.9	21	70	17	55	34	25	10	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542750--542836	20	4.4	20	71	15	65	29	20	11	37	1.88
543763--543816	24	2.2	24	93	0	90	20	18	20	40	1.91
546080--546115	18	2.0	18	94	0	63	55	25	2	16	1.55
547889--547944	21	2.7	21	88	0	76	25	19	33	21	1.97
548238--548360	63	2.0	62	82	6	149	33	31	12	22	1.91
548241--548401	21	7.7	21	66	8	76	33	32	12	21	1.91
548277--548398	63	1.9	63	83	3	156	31	33	13	22	1.92
550115--550154	19	2.1	19	85	4	53	50	27	15	7	1.70
550404--550430	14	1.9	14	100	0	54	92	0	0	7	0.38
552264--552317	14	4.0	14	72	22	53	25	0	3	70	1.04

Tables:   1   2   3   4   5   6   7