genome.fa.s6907.2.7.7.80.10.50.1000.3.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: VEPZ01006907.1 Hibiscus syriacus cultivar Beakdansim tig00017647_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  557747

Tables:   1   2   3   

This is table  3  of  3  ( 357 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)
339190--339871	38	17.2	38	76	10	609	25	17	16	39	1.91
339196--339871	118	5.6	117	79	8	611	25	17	17	39	1.91
339195--339984	38	19.5	44	73	13	219	25	17	17	40	1.91
339838--340058	45	4.9	45	77	7	180	23	16	20	38	1.92
340659--341219	134	4.2	134	87	0	739	30	15	19	34	1.94
346447--346514	33	2.1	33	100	0	136	20	8	35	35	1.84
353113--353165	18	3.0	18	75	5	63	39	9	13	37	1.77
353541--353565	2	12.5	2	100	0	50	52	0	0	48	1.00
355570--355612	17	2.5	17	96	0	77	25	13	23	37	1.92
369773--369823	7	7.4	7	82	12	70	84	0	13	1	0.71
369769--369823	10	5.3	11	80	10	71	83	0	14	1	0.73
369769--369816	24	2.0	24	88	8	71	83	0	14	2	0.74
369773--369855	20	3.9	20	79	16	78	80	0	10	8	0.90
369784--369854	26	2.8	25	80	17	76	80	0	9	9	0.91
369773--369851	14	5.8	13	75	10	68	81	0	11	7	0.89
371381--371573	46	4.5	42	65	16	106	35	19	18	26	1.95
371195--371573	133	2.9	132	87	2	483	32	18	19	30	1.96
377290--377358	10	7.1	10	76	12	72	18	23	30	27	1.98
377290--377360	19	3.7	19	92	1	106	18	25	29	26	1.98
377354--377411	17	3.4	17	81	9	73	17	39	22	20	1.92
377401--377443	7	6.4	7	84	10	63	16	27	30	25	1.97
377401--377439	13	3.0	13	92	0	69	15	28	30	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
377407--377444	20	1.9	19	94	5	67	15	26	28	28	1.96
378311--378432	31	3.9	31	78	4	113	18	27	27	26	1.98
384646--384733	10	9.1	10	77	12	94	18	23	30	27	1.97
384646--384735	19	4.7	19	90	6	128	17	25	30	26	1.98
384729--384786	17	3.4	17	97	0	107	17	43	24	15	1.87
384776--384818	7	6.4	7	89	10	72	16	30	30	23	1.96
384776--384814	13	3.0	13	100	0	78	15	30	30	23	1.95
384776--384818	20	2.2	20	91	8	70	16	30	30	23	1.96
385688--385764	31	2.5	31	82	2	100	14	25	31	28	1.95
385688--385811	63	2.0	63	82	6	153	16	27	29	26	1.97
400482--400545	27	2.4	27	100	0	128	42	25	6	26	1.78
401456--401494	14	2.7	15	84	4	53	28	30	20	20	1.98
401495--401519	13	1.9	13	100	0	50	24	16	16	44	1.86
407486--407565	20	3.7	21	79	11	81	20	21	32	26	1.97
418594--418656	19	3.3	19	80	15	76	77	3	19	0	0.90
418583--418661	17	4.4	16	75	22	61	77	2	17	2	1.00
418572--418661	9	10.1	8	71	21	56	76	3	16	3	1.05
418601--418661	28	2.1	30	81	6	72	78	3	16	1	0.96
427607--427819	112	1.9	112	83	0	273	36	15	21	26	1.93
427816--428089	40	6.7	42	75	3	177	31	22	15	30	1.95
430423--430486	2	32.0	2	100	0	128	50	0	0	50	1.00
432620--432666	8	5.9	8	97	0	85	0	25	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432617--432678	24	2.6	24	87	5	90	1	22	0	75	0.88
439398--439560	40	4.1	40	88	0	247	23	17	25	33	1.96
439637--439919	44	6.4	44	91	1	442	37	7	24	31	1.82
439709--439780	24	3.2	24	62	34	59	38	8	22	30	1.83
444433--444554	40	3.0	40	91	0	208	22	15	27	35	1.94
444631--444913	44	6.4	44	92	1	442	36	6	24	33	1.80
447649--447754	50	2.3	47	82	11	121	55	9	2	32	1.46
452958--453001	19	2.3	19	92	0	70	54	9	15	20	1.68
461169--461236	27	2.5	27	100	0	136	38	25	7	29	1.83
463201--463241	18	2.3	18	86	0	55	21	46	19	12	1.82
465729--465796	24	2.8	24	88	0	100	25	19	19	36	1.94
474549--474597	20	2.5	20	96	0	89	28	8	22	40	1.82
478895--478945	24	2.2	24	89	10	79	43	0	0	56	0.99
484547--484819	62	4.5	59	82	5	278	39	23	16	20	1.91
484568--484819	20	12.4	20	86	1	306	40	23	16	19	1.90
484568--484819	40	6.2	40	90	4	341	40	23	16	19	1.90
485505--485558	24	2.2	24	93	0	90	22	14	20	42	1.88
485733--485757	12	2.1	12	100	0	50	72	0	28	0	0.86
488092--488158	20	3.4	19	91	6	107	46	19	20	13	1.83
488185--488312	53	2.4	52	94	1	220	15	22	15	46	1.84
488182--488312	19	7.4	19	75	17	138	15	22	16	46	1.83
488419--488452	14	2.4	14	90	0	50	47	17	0	35	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488428--488454	14	1.9	14	100	0	54	37	22	0	40	1.54
488426--488600	84	2.1	84	98	0	341	41	18	2	37	1.64
488506--488539	14	2.4	14	90	0	59	44	20	0	35	1.52
489884--489944	21	3.0	20	76	7	68	19	16	39	24	1.92
489923--490002	42	1.9	42	84	0	106	22	17	38	21	1.93
490415--490566	19	8.8	18	73	20	121	46	21	22	10	1.81
490415--490530	52	2.2	52	95	0	205	46	22	21	9	1.80
490469--490561	33	2.8	33	98	0	177	46	19	22	11	1.82
490488--490542	14	3.6	14	73	21	56	45	20	23	10	1.82
490562--490653	33	2.8	33	89	0	139	10	20	21	46	1.81
490594--490655	19	3.5	19	77	20	80	9	20	19	50	1.76
490605--490635	14	2.3	13	89	10	53	9	22	19	48	1.78
490608--490634	14	1.9	14	100	0	54	7	25	22	44	1.79
490625--490671	19	2.4	19	89	3	67	12	17	25	44	1.84
490719--490992	94	3.1	86	85	10	297	45	18	13	22	1.84
490769--490992	94	2.4	93	93	2	378	45	17	13	22	1.84
495486--495552	27	2.5	27	85	4	82	49	22	7	20	1.74
496663--496768	40	2.7	39	81	5	135	24	18	22	33	1.97
500092--500183	39	2.3	39	88	1	139	43	22	5	28	1.75
504191--504228	20	2.0	20	94	5	69	44	10	26	18	1.82
505825--505955	32	4.1	32	79	0	118	20	25	25	28	1.99
506851--507032	98	1.8	99	90	1	294	36	12	16	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507971--508007	18	2.1	18	100	0	74	45	0	5	48	1.25
510006--510086	30	2.9	29	70	17	71	37	2	2	58	1.25
510450--510476	8	3.4	8	100	0	54	37	22	14	25	1.93
513850--513879	15	2.0	15	100	0	60	40	13	26	20	1.89
513952--513991	2	20.5	2	94	5	73	50	0	0	50	1.00
515516--515618	6	17.2	6	75	13	79	13	2	4	78	1.02
515499--515612	18	6.4	17	73	18	72	11	2	6	79	1.00
518266--518525	95	2.7	95	83	3	317	32	18	17	31	1.94
524175--524246	33	2.2	32	80	4	74	33	16	37	12	1.86
529544--530143	51	11.8	51	87	1	787	31	19	24	24	1.98
529540--530143	153	4.0	153	90	1	896	31	19	24	24	1.98
530148--530275	55	2.3	54	81	7	143	36	14	19	28	1.92
533475--534150	124	5.5	124	90	1	1025	31	24	18	25	1.97
534168--534560	84	4.7	84	81	1	441	32	23	19	24	1.97
534168--534560	167	2.4	168	84	1	493	32	23	19	24	1.97
535105--535182	2	40.5	2	89	7	126	50	0	0	50	1.00
535881--535906	13	2.0	13	100	0	52	7	23	30	38	1.83
538517--538542	7	3.7	7	100	0	52	11	0	42	46	1.40
539748--539774	3	9.0	3	100	0	54	66	0	0	33	0.92
540046--540350	127	2.4	127	93	0	538	25	19	24	30	1.98
540301--540434	46	3.0	46	76	7	125	27	15	27	29	1.96
541020--541188	91	1.9	91	89	2	268	26	19	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541299--541676	117	3.3	118	85	5	483	26	21	15	35	1.94
544700--544778	25	3.3	24	81	13	85	3	17	0	78	0.90
544700--544800	17	5.7	18	72	22	72	3	16	0	78	0.96
544700--544800	20	4.9	20	78	15	91	3	16	0	78	0.96
544730--544800	37	1.9	37	88	8	110	4	14	1	80	0.93
544735--544800	12	5.8	11	71	16	55	3	15	1	80	0.91
553918--553957	18	2.2	18	100	0	80	55	5	5	35	1.44

Tables:   1   2   3

The End!