genome.fa.s8936.2.7.7.80.10.50.1000.3.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: VEPZ01008936.1 Hibiscus syriacus cultivar Beakdansim tig00112254_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  973811

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 559 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)
367875--368020	63	2.4	62	83	9	180	43	13	12	30	1.81
367974--368204	64	3.6	64	80	10	256	41	14	11	32	1.82
368369--368458	36	2.5	35	81	3	108	38	12	18	30	1.88
368438--368860	107	4.0	106	83	7	511	41	10	15	31	1.82
368446--368856	211	1.9	213	83	6	539	41	10	15	32	1.82
370885--370955	21	3.4	21	75	12	65	22	18	18	40	1.91
373098--373137	21	1.9	21	94	0	71	52	15	12	20	1.74
376560--376612	21	2.5	21	78	0	61	18	26	20	33	1.96
376602--376789	20	9.3	20	90	1	259	39	18	19	22	1.93
379827--379940	20	5.7	20	91	2	176	35	25	22	16	1.95
379912--380006	32	2.8	32	85	6	118	41	20	24	14	1.89
380016--380113	19	5.8	18	65	24	61	13	23	21	41	1.88
380021--380113	32	2.9	32	90	3	141	13	23	21	40	1.89
380021--380113	33	2.8	33	91	1	143	13	23	21	40	1.89
382152--382190	19	2.0	20	95	5	71	38	25	20	15	1.92
382229--382276	19	2.5	20	89	3	71	35	22	20	20	1.96
382321--382410	20	4.5	20	94	0	162	21	17	20	41	1.91
382300--382410	40	2.9	40	89	7	162	18	18	19	42	1.90
384280--384368	20	4.5	20	84	1	99	47	23	15	13	1.81
384969--385014	21	2.2	21	88	0	65	36	17	28	17	1.92
385217--385269	17	3.0	17	77	22	56	54	0	1	43	1.11
388044--388222	36	4.9	35	78	9	164	43	4	6	45	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388048--388222	75	2.4	73	84	6	214	42	4	6	46	1.51
388266--388358	33	2.8	33	80	11	100	43	2	10	44	1.51
390727--390812	21	4.0	21	83	8	120	19	40	26	12	1.88
390731--390821	20	4.3	21	82	8	105	20	36	28	14	1.92
390767--390832	20	3.3	20	79	12	73	19	42	24	13	1.87
392106--392153	19	2.5	20	82	3	62	54	6	10	29	1.59
396591--396629	20	2.0	20	94	0	69	17	35	30	15	1.91
400875--400961	23	3.8	23	93	0	138	25	26	29	18	1.98
401285--401352	30	2.3	30	94	0	118	33	19	7	39	1.79
402585--402626	21	2.0	21	85	0	57	16	21	28	33	1.95
406166--406215	23	2.2	23	88	0	73	36	24	18	22	1.95
407233--407269	18	2.1	18	89	0	56	24	10	0	64	1.25
411408--411461	23	2.3	23	87	0	72	31	25	22	20	1.98
412484--412524	21	1.9	22	90	5	66	24	14	0	60	1.34
419308--419491	95	1.9	95	85	2	253	31	16	19	32	1.94
420677--421534	81	10.4	80	78	6	768	31	24	19	24	1.98
420716--421534	165	5.0	165	86	3	1044	31	24	19	24	1.98
422111--422430	36	8.9	34	69	18	145	45	4	8	42	1.52
422129--422314	36	4.9	38	77	10	179	47	4	5	41	1.49
423738--423792	6	8.2	6	79	18	56	7	16	0	76	1.00
425339--425370	16	2.0	16	93	0	55	9	6	53	31	1.58
428540--428653	52	2.2	53	85	7	153	22	7	0	68	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428592--428678	43	2.0	43	88	2	131	26	5	2	65	1.27
440639--440731	47	2.0	47	86	0	132	34	16	23	25	1.95
441874--441911	11	3.8	10	89	6	51	2	15	0	81	0.80
441874--441901	11	2.5	11	100	0	56	0	14	0	85	0.59
441874--441970	10	9.9	9	73	18	54	4	17	2	76	1.04
441897--441957	17	3.7	16	75	14	61	6	18	1	73	1.12
441914--441958	12	3.9	12	88	5	67	6	22	0	71	1.09
441914--441958	18	2.6	18	86	6	67	6	22	0	71	1.09
441888--441960	16	4.4	17	78	14	64	5	19	1	73	1.09
443905--443954	23	2.2	23	85	0	64	38	22	24	16	1.93
450855--450907	23	2.3	23	93	0	88	35	22	26	15	1.93
451542--451630	13	6.8	13	90	0	124	28	21	16	33	1.95
454828--454873	22	2.1	22	88	4	67	23	28	28	19	1.98
455409--455494	23	3.7	23	71	18	70	27	24	26	20	1.99
458301--458330	16	1.9	15	93	6	51	66	0	33	0	0.92
461314--461363	18	2.8	18	96	0	91	20	18	34	28	1.95
475536--475577	22	1.9	22	95	0	75	30	16	23	28	1.96
487645--487710	2	34.0	2	77	11	66	51	1	4	42	1.31
492476--492835	187	1.9	187	97	2	688	40	16	10	32	1.83
496715--496790	29	2.6	29	89	2	116	26	2	5	65	1.27
498239--498299	22	2.8	22	87	5	79	31	19	26	22	1.98
498843--498884	21	2.0	21	90	0	66	23	23	26	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498904--498961	21	2.8	21	89	0	89	25	18	25	29	1.98
501050--501142	28	3.2	29	86	9	118	38	5	0	55	1.23
501299--501371	29	2.5	29	86	2	101	67	4	2	26	1.22
501523--501593	27	2.4	30	86	11	103	43	1	0	54	1.08
501601--501665	30	2.1	30	82	5	76	47	1	4	46	1.32
501721--501755	2	18.0	2	94	5	63	48	0	0	51	1.00
501778--501835	27	2.1	27	80	0	62	65	3	6	24	1.33
501067--501974	455	2.0	452	95	3	1641	46	5	6	41	1.54
503567--503686	64	1.9	64	84	3	161	31	20	16	30	1.95
503628--503737	46	2.4	47	82	10	138	30	21	16	31	1.95
510985--511150	85	2.0	85	80	4	192	30	19	19	30	1.97
511126--511163	13	2.9	13	92	0	58	36	18	15	28	1.92
511129--511173	13	3.5	13	87	0	54	37	13	17	31	1.89
513865--513924	21	2.9	21	82	0	75	23	21	23	31	1.98
513937--513984	20	2.4	20	96	0	87	20	29	18	31	1.97
514403--514436	18	1.9	18	88	5	52	29	0	11	58	1.33
516398--516697	159	1.9	159	95	0	537	38	15	12	33	1.85
516718--516822	46	2.3	45	83	8	124	31	20	16	32	1.94
516654--516776	64	1.9	64	80	6	142	31	19	17	31	1.95
517606--517710	39	2.7	39	83	4	124	34	22	28	14	1.93
523406--523547	39	3.6	39	81	9	146	33	22	23	20	1.97
523459--523560	39	2.6	39	85	3	134	31	25	26	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529094--529123	14	2.1	15	93	6	53	63	0	6	30	1.20
529719--530192	182	2.6	182	87	3	659	41	12	17	28	1.85
530122--530159	20	2.0	18	90	10	58	52	13	15	18	1.74
532342--532387	21	2.2	21	100	0	92	39	13	30	17	1.87
534241--534289	19	2.6	19	93	0	80	30	2	12	55	1.48
534541--536082	200	7.7	200	94	1	2632	36	14	18	31	1.90
538989--539697	184	3.9	184	96	0	1321	36	13	16	33	1.88
542867--542916	23	2.2	23	96	0	91	34	8	22	36	1.83
543776--543938	87	1.9	87	90	0	263	34	14	9	41	1.77
545197--545241	23	2.0	23	86	0	63	48	2	2	46	1.26
553427--553479	16	3.3	17	73	21	60	47	0	15	37	1.45
553427--553486	32	1.9	32	93	3	104	50	0	13	36	1.42
553606--553642	19	2.0	18	89	5	56	70	5	18	5	1.27
557466--557507	20	2.1	20	100	0	84	14	19	16	50	1.79
558315--558353	3	13.0	3	94	0	60	33	5	0	61	1.18
558409--558434	3	8.7	3	100	0	52	69	0	0	30	0.89
560996--561106	2	55.5	2	85	0	132	52	7	0	40	1.29
561113--561167	27	2.0	28	89	7	85	45	7	16	30	1.74
562999--563088	44	2.0	44	100	0	180	24	15	15	44	1.85
566551--566577	3	9.0	3	100	0	54	33	0	0	66	0.92
566907--567089	60	3.1	59	82	7	192	42	4	20	32	1.72
567825--567869	21	2.2	21	92	4	74	60	6	11	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568673--568776	55	1.9	55	97	0	199	41	12	22	24	1.88
569908--569949	21	2.0	21	85	0	57	7	19	19	54	1.66
571648--571697	20	2.5	20	96	0	91	32	10	20	38	1.85
580913--581152	74	3.4	73	80	12	250	33	16	13	36	1.88
580923--581051	36	3.5	36	73	8	125	31	15	14	38	1.88
581783--581857	23	3.2	23	82	1	96	36	22	17	24	1.95
583026--583171	64	2.3	63	90	5	231	28	17	23	30	1.97
585793--585857	23	3.0	20	79	18	67	26	23	30	20	1.98
585800--585868	23	3.0	23	78	2	77	24	24	30	20	1.99
589738--589953	117	1.8	117	85	5	303	28	14	8	47	1.74

Tables:   1   2   3   4   5