genome.fa.s5728.2.7.7.80.10.50.1000.3.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: VEPZ01005728.1 Hibiscus syriacus cultivar Beakdansim tig00013386_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  971753

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 661 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)
363115--363213	42	2.4	43	77	11	100	21	18	23	37	1.94
367861--368124	43	6.1	43	77	9	243	35	20	22	21	1.96
368027--368112	44	2.0	44	83	4	111	39	13	23	23	1.90
370293--370359	21	3.1	21	79	12	64	17	37	26	17	1.93
370313--370359	23	2.0	23	91	0	76	14	44	25	14	1.84
373023--373125	20	5.1	20	83	4	127	17	37	27	17	1.92
378400--378432	16	2.0	17	94	5	59	33	6	0	60	1.21
381081--381188	54	2.0	53	92	1	180	30	14	14	39	1.87
384580--384661	41	2.0	41	100	0	164	41	17	19	21	1.90
386397--386425	3	9.7	3	100	0	58	31	0	0	68	0.89
392555--392606	3	17.3	3	80	7	61	30	1	3	63	1.23
397539--397583	21	2.1	21	84	8	56	55	4	8	31	1.51
400151--400220	31	2.3	31	94	0	122	51	8	7	32	1.60
407034--407180	73	2.0	73	82	5	181	36	10	12	40	1.79
410044--410090	23	2.1	23	84	7	62	27	19	8	44	1.79
419882--419906	13	1.9	13	100	0	50	80	0	4	16	0.87
420627--420683	23	2.5	22	83	8	69	29	1	1	66	1.12
420630--420683	27	2.0	28	82	10	67	29	1	1	66	1.12
420691--420723	11	2.8	12	90	4	50	42	3	6	48	1.43
431924--432096	91	1.9	91	90	2	276	36	13	15	34	1.87
440009--440066	29	2.0	29	100	0	116	13	20	13	51	1.75
449329--449380	21	2.5	21	84	3	70	40	19	23	17	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449369--449503	20	6.7	20	84	5	137	31	25	18	25	1.98
449348--449482	61	2.2	61	84	2	173	34	24	19	22	1.97
449997--450055	20	3.0	20	87	0	73	16	18	22	42	1.89
450192--450246	25	2.2	24	78	15	58	20	9	18	52	1.71
451374--451418	18	2.5	18	92	0	72	28	46	13	11	1.77
451900--451966	20	3.4	20	81	2	73	38	23	22	14	1.92
451955--452013	14	3.9	14	76	20	64	50	23	15	10	1.74
451939--452030	33	2.8	33	94	0	166	48	21	17	11	1.79
451939--452035	19	5.6	19	71	22	88	47	21	18	12	1.81
452042--452148	20	5.9	18	73	15	69	13	20	22	43	1.86
452091--452146	20	2.8	19	86	7	76	16	25	23	35	1.94
454019--454054	14	2.6	14	90	0	54	30	0	22	47	1.52
454198--454239	19	2.2	19	91	0	66	47	16	19	16	1.83
454206--454246	19	2.2	19	86	0	55	51	14	19	14	1.77
454277--454334	20	2.9	20	97	0	107	15	22	24	37	1.93
454658--454771	20	5.7	20	79	6	113	24	18	25	31	1.97
454638--454775	41	3.4	41	78	6	145	23	18	23	34	1.96
454698--454793	41	2.3	41	85	3	122	19	20	23	35	1.96
468438--468485	23	2.1	23	88	0	69	35	12	18	33	1.89
468862--468915	23	2.5	20	75	18	54	42	18	1	37	1.61
468877--468939	23	2.7	23	90	0	90	38	19	6	36	1.77
468597--469900	431	3.0	431	100	0	2608	38	12	8	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469293--469346	23	2.5	20	75	18	54	42	18	1	37	1.61
469308--469370	23	2.7	23	90	0	90	38	19	6	36	1.77
469724--469777	23	2.5	20	75	18	54	42	18	1	37	1.61
469739--469801	23	2.7	23	90	0	90	38	19	6	36	1.77
470554--471375	200	4.1	198	96	1	1495	33	15	14	36	1.87
471441--471520	38	2.1	38	83	2	99	55	10	2	32	1.47
471457--471520	19	3.4	19	95	0	110	56	9	3	31	1.47
473315--473380	33	2.0	33	87	0	96	24	45	1	28	1.62
475501--475553	24	2.2	24	83	6	63	26	7	13	52	1.66
475698--475744	20	2.4	19	79	10	58	19	17	8	55	1.67
475861--475910	20	2.5	20	81	12	75	22	16	10	52	1.73
484390--484471	32	2.5	32	70	7	76	35	10	0	53	1.36
485582--485633	20	2.6	20	90	0	77	44	26	17	11	1.83
485601--485971	20	18.5	20	84	5	455	35	25	18	20	1.95
486648--486694	24	2.0	24	87	8	69	25	14	21	38	1.92
486869--486893	12	2.1	12	100	0	50	72	0	28	0	0.86
489174--489447	19	15.4	19	81	15	354	46	17	21	13	1.83
489202--489469	109	2.5	105	91	6	459	46	16	22	14	1.83
489202--489469	52	5.0	52	93	4	455	46	16	22	14	1.83
489476--489558	20	4.6	19	81	15	113	14	24	18	43	1.87
489665--489701	14	2.6	14	91	0	65	45	21	0	32	1.52
491653--491709	14	3.7	14	77	20	60	45	22	21	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491634--491726	33	2.8	33	95	0	168	47	21	20	10	1.80
491597--491731	19	7.6	19	76	16	128	45	23	19	11	1.82
491727--491855	19	7.3	19	75	17	125	8	17	28	45	1.77
491727--491818	33	2.8	33	93	3	150	7	18	28	45	1.76
491899--492277	92	4.1	93	98	0	735	46	18	12	22	1.83
491899--492277	185	2.0	185	98	1	733	46	18	12	22	1.83
493975--494064	14	5.7	14	74	23	81	42	23	25	8	1.83
493967--494081	33	3.5	33	95	0	212	45	20	24	9	1.81
493974--494086	19	6.8	18	72	23	88	43	22	24	9	1.83
494098--494152	14	3.6	14	73	21	56	9	25	23	41	1.83
494082--494152	33	2.2	33	94	0	124	8	22	25	43	1.81
494093--494174	33	2.5	33	89	2	119	9	25	21	42	1.84
494105--494193	20	4.8	20	72	19	75	12	24	19	43	1.85
494273--494343	33	2.2	33	92	0	115	47	16	22	12	1.80
494524--494578	22	2.5	22	81	0	74	20	16	40	23	1.91
494724--494916	20	9.6	20	82	5	219	19	19	25	35	1.95
494724--494916	60	3.2	60	83	0	251	19	19	25	35	1.95
498797--498924	42	3.0	42	91	3	177	27	4	17	50	1.66
499481--499580	51	2.0	51	100	0	200	46	8	14	32	1.73
500220--500252	2	16.5	2	100	0	66	48	0	0	51	1.00
500394--500440	23	2.0	23	91	0	76	38	21	4	36	1.73
500656--500744	23	4.0	23	77	5	83	33	24	23	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500939--501007	14	4.7	14	81	10	84	42	20	7	30	1.79
500939--500998	30	1.9	32	90	6	97	41	21	6	30	1.79
500939--501031	45	2.1	45	93	0	159	41	21	6	30	1.78
501994--502036	4	11.0	4	80	5	52	72	0	4	23	1.04
502439--502513	32	2.3	32	95	0	132	26	17	30	25	1.97
503455--503484	2	15.5	2	93	6	53	53	0	0	46	1.00
504037--505609	106	14.8	106	94	0	2606	23	17	24	34	1.96
507666--507718	27	2.0	26	85	10	72	66	5	15	13	1.43
511023--511058	2	18.5	2	94	5	65	52	0	0	47	1.00
517531--517839	76	4.1	76	81	6	346	33	14	10	41	1.80
517874--517934	21	3.2	21	69	26	71	27	21	11	39	1.88
517847--518062	36	5.9	36	87	3	279	24	24	13	37	1.92
517847--518062	109	2.0	111	85	4	294	24	24	13	37	1.92
517850--518026	73	2.4	72	90	0	273	24	24	13	37	1.92
518109--518180	15	4.4	15	71	19	63	22	27	16	33	1.95
517997--518216	51	4.2	51	88	3	269	23	25	15	35	1.94
518154--518256	36	2.9	36	91	0	161	30	23	15	31	1.95
518277--518304	13	2.2	13	100	0	56	17	28	17	35	1.93
523992--524051	2	30.5	2	96	3	113	50	0	0	50	1.00
529602--529699	48	2.0	48	94	0	169	41	16	13	28	1.86
535594--535664	37	1.9	37	94	0	124	33	21	16	28	1.95
540419--540603	59	3.1	59	77	7	196	41	18	8	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540672--540840	59	2.8	60	82	4	196	40	20	8	30	1.83
540436--540869	220	2.0	216	88	4	647	40	16	9	34	1.80
545139--545176	14	2.7	14	84	8	51	13	7	18	60	1.56
545359--545398	14	2.9	14	84	0	53	10	12	17	60	1.59
545368--545448	24	3.4	24	82	0	90	13	12	16	58	1.64
545454--545512	31	2.0	29	90	6	91	50	13	10	25	1.72
548557--548595	20	2.0	19	85	14	53	41	20	10	28	1.85
555594--555721	35	3.7	34	87	6	116	32	6	18	42	1.76
555594--555757	70	2.3	70	83	8	199	32	6	17	43	1.74
555621--555775	35	4.3	36	90	4	226	31	5	18	44	1.72

Tables:   1   2   3   4   5   6