genome.fa.s8550.2.7.7.80.10.50.1000.3.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: VEPZ01008550.1 Hibiscus syriacus cultivar Beakdansim tig00111445_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1154708

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 681 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)
375139--375192	27	2.0	27	100	0	108	18	11	25	44	1.83
376107--376162	19	2.9	19	82	10	69	48	23	16	12	1.80
376107--376162	20	2.8	20	89	2	78	48	23	16	12	1.80
376164--376192	14	2.0	15	93	6	51	13	20	24	41	1.89
376173--376220	20	2.4	20	85	0	69	14	18	18	47	1.82
376205--376290	29	3.0	29	94	0	145	31	24	16	27	1.96
376532--376567	18	2.0	18	94	0	63	16	0	25	58	1.38
378773--378819	24	2.0	24	95	0	85	34	17	21	27	1.95
378777--378828	24	2.2	24	85	0	68	36	19	19	25	1.95
379733--379823	20	4.7	19	76	12	71	34	12	21	31	1.90
379793--379860	20	3.3	20	85	6	84	22	10	25	42	1.84
381205--381263	14	4.1	14	73	4	55	54	5	1	38	1.33
381473--381581	33	3.7	29	71	26	70	49	0	1	47	1.18
381525--381588	33	1.9	33	81	12	78	51	1	3	43	1.26
381612--381662	23	2.2	23	82	0	57	45	1	1	50	1.24
381795--381855	23	2.6	24	82	7	72	42	3	1	52	1.27
385435--386052	255	2.4	256	86	10	830	26	13	19	40	1.89
386402--386453	18	2.9	17	83	8	68	25	30	11	32	1.91
387300--387327	2	14.0	2	100	0	56	50	0	0	50	1.00
388083--388116	2	17.0	2	100	0	68	50	0	0	50	1.00
389547--389695	49	3.1	49	60	19	114	22	12	19	45	1.83
389516--389707	95	2.0	95	100	0	384	21	11	18	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389532--389681	50	3.1	50	60	19	118	21	11	20	47	1.81
395191--395269	39	2.0	39	100	0	158	29	27	17	25	1.98
398910--398942	15	2.1	16	94	5	59	6	24	18	51	1.68
399694--399727	16	2.1	16	94	0	59	32	26	8	32	1.87
402133--402158	2	13.0	2	100	0	52	50	0	0	50	1.00
404136--404428	146	2.0	145	99	0	577	32	11	15	41	1.82
407887--407928	21	2.0	21	86	9	59	38	0	35	26	1.57
409756--409805	7	7.4	7	86	8	77	24	28	30	18	1.97
409760--409805	13	3.5	13	90	3	74	23	28	30	17	1.97
409756--409805	20	2.5	20	87	6	75	24	28	30	18	1.97
409795--409835	17	2.4	17	95	0	73	17	24	41	17	1.89
409829--409887	19	3.2	18	85	7	73	25	32	27	15	1.95
409829--409887	9	6.3	9	82	7	73	25	32	27	15	1.95
409829--409887	28	2.1	28	90	6	93	25	32	27	15	1.95
411583--411641	9	6.3	9	82	7	73	15	27	32	25	1.95
411583--411641	28	2.1	28	90	6	93	15	27	32	25	1.95
411583--411641	19	3.2	18	87	4	73	15	27	32	25	1.95
411635--411675	17	2.4	17	95	0	73	17	41	24	17	1.89
411665--411701	7	5.4	7	93	6	67	16	29	29	24	1.96
411665--411697	13	2.5	13	95	5	57	15	30	30	24	1.95
418654--418691	20	1.9	20	94	0	67	18	21	26	34	1.96
418655--418714	9	6.3	9	79	11	66	16	25	30	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418655--418714	19	3.2	18	85	7	57	16	25	30	28	1.97
418655--418714	28	2.1	28	84	9	77	16	25	30	28	1.97
418708--418748	17	2.4	17	95	0	73	17	41	24	17	1.89
418738--418787	7	7.4	7	91	8	86	16	30	30	24	1.96
418738--418783	13	3.5	13	96	3	83	15	30	30	23	1.95
418738--418787	20	2.5	20	93	6	84	16	30	30	24	1.96
420705--420764	31	2.0	31	87	12	90	43	15	6	35	1.72
423531--423600	34	2.1	32	84	5	86	24	27	15	32	1.95
423885--423926	21	2.0	21	95	0	75	26	28	21	23	1.99
424032--424098	19	3.5	19	87	0	80	35	11	11	40	1.79
424163--424222	29	2.0	31	87	6	88	41	15	6	36	1.73
447798--447843	14	3.1	15	80	20	53	4	13	2	80	0.95
450170--450218	20	2.5	20	87	9	73	46	18	16	18	1.84
450857--450922	33	2.0	33	93	0	114	25	16	24	33	1.96
450859--450930	33	2.2	33	89	0	108	27	18	22	31	1.97
454202--454252	24	2.1	25	96	3	95	47	7	5	39	1.57
463304--463363	30	2.0	30	96	0	111	23	18	3	55	1.58
463368--463405	18	2.2	17	86	13	51	10	26	0	63	1.27
464503--464530	2	14.0	2	100	0	56	50	0	0	50	1.00
467441--467699	53	4.9	53	88	0	385	21	27	20	31	1.98
467441--467699	105	2.5	106	90	0	403	21	27	20	31	1.98
468101--468279	42	4.4	41	67	19	113	31	23	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468202--468286	42	2.0	42	90	4	136	30	23	18	27	1.98
468274--468298	13	1.9	13	100	0	50	24	20	24	32	1.98
468367--468391	13	1.9	13	100	0	50	24	20	24	32	1.98
468244--468472	93	2.5	93	94	0	395	28	21	18	30	1.97
477302--477334	17	1.9	17	100	0	66	54	18	0	27	1.44
484793--484847	25	2.2	25	78	18	62	41	16	0	41	1.48
485287--485344	20	2.6	22	84	10	66	25	22	20	31	1.98
487321--487371	25	2.0	25	96	0	93	39	15	19	25	1.91
488278--488310	3	11.0	3	100	0	66	33	0	0	66	0.92
490045--490099	13	4.2	14	75	13	55	20	43	14	21	1.87
490045--490099	26	2.1	26	93	6	94	20	43	14	21	1.87
498276--498352	31	2.5	31	79	12	88	59	7	5	27	1.46
499230--500208	183	5.4	181	86	4	1273	41	14	16	26	1.87
499230--500208	182	5.4	180	88	3	1296	41	14	16	26	1.87
499230--500208	363	2.7	364	87	4	1363	41	14	16	26	1.87
503352--503381	15	2.0	15	93	0	51	20	10	56	13	1.65
503507--503632	66	1.9	66	80	0	144	33	4	38	23	1.76
505309--505357	19	2.6	19	93	0	80	34	0	10	55	1.34
505729--507095	201	6.8	201	90	1	2032	37	14	14	33	1.86
506380--506418	20	2.0	20	85	5	53	41	5	12	41	1.65
505729--507095	400	3.4	401	90	2	2059	37	14	14	33	1.86
508546--508589	3	14.7	3	90	0	70	38	0	31	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511391--511421	15	2.1	15	100	0	62	48	19	6	25	1.72
511395--511429	15	2.3	15	90	0	52	54	14	8	22	1.67
512030--512073	21	2.0	21	82	4	52	25	15	11	47	1.79
511864--512465	199	3.0	197	85	3	821	37	15	15	31	1.89
516252--516953	200	3.5	198	87	1	924	38	15	15	31	1.89
516971--517133	87	1.9	87	93	2	283	32	15	11	40	1.83
517055--517099	23	2.0	23	90	0	72	37	17	11	33	1.85
517393--517455	29	2.3	29	86	8	87	49	6	4	39	1.49
517387--517455	26	2.5	27	81	9	86	46	5	4	43	1.47
518919--518947	11	2.7	11	94	5	51	48	6	0	44	1.29
521864--521970	53	2.0	53	85	0	142	29	10	19	40	1.85
523459--523524	30	2.2	30	82	12	75	21	24	12	42	1.86
526229--526268	21	2.0	19	85	9	53	30	17	12	40	1.86
529382--529422	15	2.8	15	92	3	66	0	46	4	48	1.23
530247--530886	136	4.7	138	87	4	696	25	21	17	35	1.95
531266--531329	3	21.0	3	96	3	119	32	0	0	67	0.91
538486--538545	22	2.7	22	92	0	93	15	38	20	26	1.91
538718--538853	28	4.9	28	71	15	102	40	5	3	50	1.44
538718--538853	29	4.9	29	71	14	97	40	5	3	50	1.44
539107--539155	24	2.0	24	100	0	98	36	22	12	28	1.90
547617--547728	37	3.1	37	84	1	127	37	16	21	24	1.94
547739--548141	55	7.3	55	78	12	202	31	18	20	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547798--548167	55	6.7	55	85	4	419	31	19	20	28	1.97
548068--548307	131	1.8	131	81	1	302	35	19	18	26	1.95
548452--548498	3	15.3	3	95	4	85	31	0	0	68	0.90
550083--550127	21	2.1	21	100	0	90	42	8	13	35	1.75
556319--556446	36	3.5	36	73	10	134	25	16	13	44	1.84
556328--556559	73	3.2	71	87	4	302	27	16	14	41	1.87
556316--556503	36	5.2	36	70	5	128	27	15	13	43	1.85
556590--556639	21	2.4	21	96	0	91	26	22	10	42	1.84
556705--556790	37	2.4	37	84	2	102	25	19	15	39	1.91
556741--556903	65	2.5	66	81	5	188	30	16	13	39	1.87

Tables:   1   2   3   4   5   6