genome.fa.s8756.2.7.7.80.10.50.1000.3.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: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4584045

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  3  of  21  ( 2443 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)
403102--403188	14	6.0	14	70	17	52	45	0	9	44	1.35
403098--403138	17	2.4	17	91	0	64	43	0	2	53	1.13
403075--403134	24	2.4	25	78	10	70	43	0	6	50	1.28
403178--403230	18	2.9	18	97	0	97	43	3	5	47	1.45
403082--403202	24	5.0	24	72	16	97	44	0	8	46	1.39
402989--403194	11	17.1	11	70	19	80	44	0	10	44	1.44
403518--403610	26	3.7	26	90	4	138	48	2	8	40	1.46
403518--403631	26	4.6	25	82	9	121	46	1	10	41	1.48
403452--403631	11	15.1	11	71	12	99	43	1	12	42	1.52
403518--403702	14	14.9	13	70	22	107	45	2	9	42	1.49
406214--406302	47	2.0	46	84	6	119	48	10	1	40	1.44
407329--407380	19	2.7	19	100	0	104	55	0	5	38	1.24
409512--409740	40	5.7	40	70	9	144	29	17	17	34	1.94
409482--409734	81	3.1	80	73	9	244	29	19	18	32	1.95
409724--409908	43	4.3	43	88	1	253	28	24	20	27	1.99
410816--410990	91	1.9	92	85	1	244	33	17	13	36	1.89
410816--411014	92	2.2	91	82	2	238	34	18	13	34	1.89
414323--414366	19	2.3	19	84	0	52	56	6	29	6	1.51
414763--414884	43	2.9	42	72	11	131	28	22	20	27	1.99
414752--414938	85	2.2	85	88	0	275	31	20	19	28	1.97
418541--418606	29	2.2	30	84	7	82	28	19	6	45	1.74
427451--427519	35	2.0	34	85	2	93	49	14	24	11	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434861--434916	27	2.1	26	84	15	71	17	12	5	64	1.45
435284--435328	20	2.2	20	92	0	72	28	8	20	42	1.82
444677--444751	30	2.5	30	80	4	80	40	8	18	33	1.80
445524--445588	31	2.1	31	82	2	78	38	3	18	40	1.66
446879--447129	31	8.1	31	93	0	358	25	15	21	37	1.93
448882--448921	19	2.0	20	86	13	57	27	7	5	60	1.45
448894--448948	18	3.0	19	78	21	64	29	5	1	63	1.27
457991--458030	15	2.7	15	88	0	62	75	0	22	2	0.93
457993--458027	18	1.9	18	94	0	61	77	0	20	2	0.90
458102--458186	28	3.0	28	92	0	134	32	1	17	48	1.55
460255--460298	23	1.9	23	86	9	63	52	15	4	27	1.63
462207--462282	12	6.1	14	89	10	53	30	1	0	68	0.98
462233--462284	3	17.3	3	100	0	104	32	0	0	67	0.91
462774--462808	13	2.7	13	90	0	61	14	14	17	54	1.72
463409--463550	29	4.9	29	89	1	196	21	17	17	42	1.89
464836--464864	2	14.5	2	100	0	58	48	0	0	51	1.00
475448--475605	15	10.3	15	73	19	98	76	0	20	3	0.92
475443--475597	8	19.2	8	73	15	97	76	0	20	2	0.90
475560--475606	18	2.8	18	81	12	57	78	0	14	6	0.93
475448--475596	7	19.9	7	74	17	113	76	0	20	2	0.91
475446--475529	9	9.6	9	76	17	54	80	0	19	0	0.70
476868--476976	37	2.9	37	87	4	148	39	19	19	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476981--477553	106	5.4	106	83	5	635	28	16	25	29	1.97
476987--477553	51	10.7	55	85	3	607	28	16	25	29	1.97
477144--477554	55	7.7	55	82	6	213	28	16	25	29	1.97
478078--478110	16	2.1	16	100	0	66	57	6	24	12	1.57
480208--480236	2	14.5	2	100	0	58	51	0	0	48	1.00
486610--486670	22	2.8	22	94	0	104	19	40	26	13	1.88
492490--492549	23	2.9	19	85	12	66	21	30	26	21	1.99
499685--499730	2	23.0	2	100	0	92	50	0	0	50	1.00
508266--508305	21	2.0	21	85	9	57	35	12	17	35	1.88
509298--509404	50	2.3	47	81	13	125	52	13	1	32	1.51
512818--513056	66	3.6	65	76	9	245	28	15	12	42	1.84
513063--513603	138	3.9	137	86	0	704	29	27	15	27	1.96
513932--513972	3	13.7	3	84	0	55	29	4	2	63	1.28
527279--527346	35	1.9	35	91	5	111	27	20	19	32	1.97
530727--530751	13	1.9	13	100	0	50	24	24	12	40	1.88
532044--532104	28	2.2	28	85	5	79	24	8	18	49	1.74
538020--538057	18	2.1	18	95	0	67	10	26	10	52	1.68
543676--543702	8	3.4	8	100	0	54	62	0	25	11	1.28
544776--544821	20	2.2	20	84	3	56	26	30	2	41	1.68
549559--549610	16	3.0	17	78	18	54	25	28	17	28	1.97
551446--551853	60	6.8	60	83	0	483	35	12	22	29	1.91
551446--551853	180	2.3	180	87	0	566	35	12	22	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564422--564474	27	2.0	27	85	3	72	30	20	22	26	1.98
568861--568919	3	19.0	3	86	6	82	38	0	0	61	0.96
568862--568917	22	2.5	22	100	0	112	39	0	0	60	0.97
574369--574400	15	2.1	15	94	0	55	25	18	9	46	1.79
581733--581783	1	51.0	1	80	0	57	90	0	9	0	0.46
581728--581783	27	2.0	27	89	3	85	87	0	12	0	0.54
581733--581784	19	2.7	19	91	8	88	88	0	11	0	0.52
582787--583163	94	4.0	94	95	1	661	29	15	20	34	1.93
583065--583344	115	2.4	113	94	5	508	30	14	20	34	1.92
584098--585404	116	11.3	116	91	1	1950	36	14	19	29	1.91
585628--585675	3	15.7	3	86	4	69	37	0	0	62	0.95
585630--585674	12	3.9	12	91	8	76	40	0	0	60	0.97
589498--589522	13	1.9	13	100	0	50	32	4	8	56	1.47
590979--591009	3	10.3	3	100	0	62	64	0	0	35	0.94
599845--599889	19	2.3	20	85	11	58	26	6	2	64	1.30
605473--605497	11	2.3	11	100	0	50	16	8	0	76	1.02
612629--612989	180	2.0	181	99	0	715	19	27	17	35	1.95
614438--614487	26	1.9	26	95	0	91	22	6	22	50	1.70
619173--619214	17	2.6	16	76	23	52	69	7	0	23	1.13
621150--621181	2	16.0	2	100	0	64	50	0	0	50	1.00
621717--622032	54	5.9	54	90	0	479	32	17	18	31	1.94
624746--624905	63	2.5	63	98	0	311	31	25	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624806--624907	34	3.1	34	61	23	83	31	23	14	30	1.94
631357--631500	72	2.0	72	100	0	288	20	22	25	31	1.98
634052--634203	76	2.0	76	100	0	304	19	27	5	47	1.71
634960--635002	18	2.4	18	100	0	86	23	18	30	27	1.98
635079--635122	20	2.1	21	91	4	72	29	15	34	20	1.94
638510--638654	71	2.0	73	97	2	276	36	16	9	37	1.82
638608--638712	53	2.0	53	98	1	203	30	11	17	40	1.84
649061--649158	48	2.0	49	98	2	189	24	12	16	46	1.81
659372--659481	38	2.9	36	80	12	114	79	0	8	11	0.99
659358--659482	21	5.8	22	72	13	82	79	0	8	12	0.98
659415--659481	29	2.3	29	80	14	84	82	1	5	10	0.91
660692--660990	131	2.2	131	83	3	384	32	21	16	29	1.95
663226--663265	17	2.3	18	91	4	64	27	5	0	67	1.11
669535--669652	44	2.7	43	91	7	186	38	6	22	33	1.80
675227--675271	14	3.2	14	96	0	81	44	6	4	44	1.50
678939--679112	29	6.0	29	91	0	240	25	21	9	43	1.82
679081--679235	81	1.9	81	84	5	206	29	23	12	34	1.92
679187--679846	68	9.8	68	89	1	916	32	24	14	28	1.94
680022--680173	55	2.8	55	80	10	170	36	19	9	34	1.83
680812--682064	623	2.0	630	90	3	1981	36	20	7	36	1.80
685293--685342	2	25.0	2	100	0	100	50	0	0	50	1.00
685479--685713	29	8.1	29	96	0	371	26	22	5	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
685786--686113	68	4.9	68	83	3	396	33	22	14	29	1.93
685786--686113	132	2.4	134	84	5	419	33	22	14	29	1.93
689073--689135	21	3.0	21	65	9	56	36	14	4	44	1.66
690172--690262	30	3.0	30	98	0	173	36	15	16	31	1.90
691339--691363	3	8.3	3	100	0	50	0	32	0	68	0.90
695511--695557	23	2.0	23	84	8	60	34	17	14	34	1.90
698175--698213	13	3.0	13	84	0	60	33	17	23	25	1.96
700122--700150	2	14.5	2	100	0	58	51	0	0	48	1.00
707092--707164	38	2.0	36	81	10	85	39	1	2	56	1.22
708756--708795	8	4.9	8	82	17	55	25	0	0	75	0.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21