genome.fa.s9592.2.7.7.80.10.50.1000.3.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  3  of  39  ( 4673 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)
430759--430838	34	2.4	34	84	0	106	12	21	25	41	1.88
432360--432447	42	2.1	42	89	2	133	20	14	42	22	1.89
432387--432447	21	2.9	21	73	9	70	21	13	42	22	1.87
432778--432816	20	2.0	20	94	0	69	33	28	12	25	1.93
432804--432876	20	3.7	20	88	0	101	35	24	24	15	1.94
432863--432921	19	3.4	19	73	22	74	47	20	18	13	1.82
432879--432937	14	3.9	14	76	20	64	49	23	16	10	1.77
432863--432942	33	2.4	33	97	0	151	47	22	18	11	1.80
432954--433010	14	3.7	14	70	20	51	12	15	21	50	1.76
432968--433026	19	3.4	19	68	22	65	15	18	18	47	1.83
432949--433023	33	2.3	33	97	0	141	13	20	20	46	1.83
433558--433605	18	2.7	18	93	0	87	14	12	45	27	1.81
434895--434937	20	2.2	20	91	0	68	51	20	18	9	1.74
435440--435553	20	5.7	20	83	6	140	21	17	28	32	1.96
435420--435555	41	3.3	41	83	6	186	22	16	26	34	1.95
435585--435637	21	2.5	20	85	8	79	33	16	26	22	1.96
435897--435936	19	2.1	19	100	0	80	32	22	20	25	1.98
439086--439144	21	2.8	21	97	0	109	20	5	23	50	1.67
442618--442656	12	3.3	12	92	7	71	38	17	7	35	1.79
442622--442656	11	3.1	11	95	4	61	40	17	8	34	1.80
445666--445723	28	2.0	29	96	3	109	29	29	17	24	1.97
456594--456644	22	2.4	21	75	15	52	52	9	13	23	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456830--456859	2	15.0	2	100	0	60	50	0	0	50	1.00
461033--461082	25	2.0	25	88	0	73	24	40	20	16	1.91
461782--461838	22	2.6	22	85	0	87	21	38	19	21	1.93
462221--462276	20	2.8	20	100	0	112	21	19	26	32	1.97
462218--462303	20	4.3	20	86	4	86	20	16	24	38	1.93
464273--464319	20	2.3	20	92	0	76	23	19	21	36	1.95
464273--464329	20	2.8	20	78	5	53	22	17	19	40	1.91
464811--464852	21	2.2	19	87	12	59	21	35	19	23	1.96
464805--464897	42	2.2	42	82	3	107	21	39	16	22	1.92
466294--466355	14	4.3	14	77	6	61	38	0	14	46	1.45
466454--466507	20	2.7	20	85	5	74	42	27	18	11	1.84
466516--466652	34	3.9	34	77	11	139	23	21	21	34	1.97
466550--466795	94	2.6	94	85	1	332	27	19	20	32	1.97
466510--466682	74	2.3	74	91	2	267	26	20	19	33	1.96
466645--466787	75	1.9	75	91	1	234	27	17	22	32	1.96
466501--466795	20	15.6	20	74	13	241	26	19	21	32	1.97
468968--469004	16	2.3	16	90	0	56	32	27	2	37	1.71
469087--469122	12	3.0	12	100	0	72	0	25	0	75	0.81
469297--469350	24	2.2	24	93	0	90	40	20	18	20	1.91
470216--470259	21	2.1	21	86	0	61	38	15	27	18	1.91
472087--472143	18	3.1	18	82	7	53	59	5	1	33	1.30
472087--472133	19	2.5	19	82	3	51	59	4	0	36	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476740--476807	22	3.2	22	81	8	70	64	0	32	2	1.08
476740--476801	18	3.3	19	80	11	65	64	0	32	3	1.09
476864--476906	18	2.4	18	100	0	86	53	0	0	46	1.00
477139--477177	17	2.2	18	86	4	53	38	2	7	51	1.44
478179--478223	21	2.1	21	91	0	72	26	24	22	26	2.00
478918--479069	32	4.9	32	74	9	120	31	19	17	31	1.95
479229--479254	2	13.0	2	100	0	52	50	0	0	50	1.00
481474--481499	8	3.2	8	100	0	52	34	0	0	65	0.93
482604--482689	20	4.6	19	72	24	76	53	5	2	38	1.38
482570--482689	54	2.2	54	88	7	174	51	6	2	39	1.42
484729--484763	13	2.8	12	91	8	52	40	20	2	37	1.67
485510--485591	35	2.5	30	75	13	74	69	2	8	19	1.26
485806--485853	12	4.3	11	78	21	55	72	2	0	25	0.95
485806--485852	14	3.2	14	77	17	51	72	2	0	25	0.96
485791--485863	26	2.9	25	75	13	69	71	1	4	23	1.11
487669--488737	84	13.0	85	83	6	1248	25	18	21	34	1.96
487617--488737	328	3.4	331	83	6	1329	25	18	21	34	1.96
489322--489793	236	2.0	233	98	1	917	32	14	15	37	1.88
494077--494119	19	2.3	19	92	8	70	86	11	0	2	0.67
494325--494468	63	2.2	65	79	15	147	68	1	4	26	1.16
494374--494612	87	2.9	85	79	11	221	67	2	7	23	1.26
494476--494651	87	2.0	89	96	2	329	63	2	10	23	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494484--494674	89	2.2	87	88	5	260	63	3	10	23	1.40
494751--494784	2	17.5	2	93	6	61	52	0	0	47	1.00
495417--495461	23	1.9	24	82	13	58	20	11	11	57	1.63
495821--495857	19	1.9	19	88	0	56	59	5	2	32	1.34
497963--498015	22	2.4	21	72	9	52	26	0	13	60	1.33
503106--503431	164	2.0	162	96	2	609	40	18	15	24	1.90
511747--511787	16	2.6	16	92	0	64	34	34	4	26	1.78
536205--536239	15	2.3	15	90	0	52	68	0	0	31	0.90
536210--536247	15	2.4	16	86	8	51	71	0	0	28	0.87
538495--538537	20	2.2	20	86	0	59	37	18	13	30	1.90
547397--547440	23	1.9	23	85	0	61	31	9	29	29	1.88
550357--550404	17	3.0	15	77	14	51	56	27	2	14	1.50
552399--552458	23	2.6	23	91	0	102	20	23	31	25	1.98
557587--557635	24	2.0	24	84	7	64	44	16	2	36	1.59
558011--558055	22	2.0	22	95	0	81	24	33	22	20	1.97
558567--558625	22	2.9	21	80	9	59	28	25	20	25	1.99
561401--561440	21	1.9	21	85	10	55	35	10	2	52	1.48
567307--567452	66	2.3	66	83	8	176	26	27	26	19	1.99
567753--567824	29	2.5	29	90	0	108	37	11	12	38	1.79
567839--567897	30	1.9	31	86	3	84	37	6	22	33	1.80
568113--568179	22	3.0	22	100	0	134	19	26	26	26	1.99
574189--574231	21	2.0	21	86	0	59	30	27	25	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574189--574358	65	2.6	65	85	6	200	27	27	26	18	1.98
574661--574732	29	2.5	29	90	0	108	37	11	12	38	1.79
574747--574805	30	1.9	31	86	3	84	37	6	22	33	1.80
575025--575091	22	3.0	22	100	0	134	19	26	26	26	1.99
576609--576644	14	2.6	14	100	0	72	44	8	27	19	1.79
583995--584037	22	2.0	22	95	0	77	25	32	30	11	1.91
584709--584928	34	6.6	34	82	7	247	48	16	20	15	1.82
584709--584928	68	3.3	67	84	8	281	48	16	20	15	1.82
588106--588244	39	3.6	39	78	6	149	33	23	26	17	1.96
589005--589056	18	2.9	18	79	0	68	32	19	25	23	1.97
591994--592139	21	6.8	21	76	4	121	34	23	17	24	1.96
592745--592791	19	2.5	19	96	0	85	27	8	21	42	1.81
598833--598970	21	6.5	21	75	6	98	37	21	14	26	1.92
599151--599192	21	2.0	22	81	13	52	38	19	9	33	1.84
604193--604327	39	3.5	38	82	7	157	32	21	28	17	1.96
606877--606932	30	2.0	27	86	10	76	48	0	5	46	1.25
621865--621932	29	2.3	30	83	14	88	23	1	4	70	1.13
622460--622514	27	2.0	29	86	10	80	60	16	1	21	1.45
623552--623621	29	2.3	31	82	4	81	38	0	1	60	1.06
628178--628292	60	1.9	60	83	0	149	26	22	25	26	2.00
630382--630420	20	2.0	20	84	0	51	25	25	7	41	1.82
635531--635841	156	2.0	156	100	0	622	32	12	19	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649268--649294	12	2.2	12	100	0	54	22	14	18	44	1.86
652051--652107	29	2.0	29	82	0	69	35	10	5	49	1.60
652278--652386	51	2.1	51	88	6	159	45	12	14	26	1.81
653720--653744	11	2.3	11	100	0	50	44	0	0	56	0.99
653808--653864	29	2.0	29	89	0	87	47	10	12	29	1.74
654478--654572	31	3.0	31	81	7	93	36	5	7	50	1.53
654500--654577	31	2.5	31	87	2	104	35	2	8	52	1.47
655087--655171	36	2.2	37	78	13	93	50	2	2	44	1.27
656835--656866	2	16.0	2	100	0	64	50	0	0	50	1.00
658658--658951	55	5.4	55	89	2	441	34	18	18	29	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39