In silico restriction map and PFGE

Restriction Enzyme: SfiI
Recognition sequence: GGCCN_NNN'NGGCC
Genera: Mycoplasma

Results are not available when the number of fragments is over 50.
Place cursor over bands to show the genome.



 
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No. Bands

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(1)





(2)

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(2)

(0)

(0)

(1)

(1)

(1)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)







(4)



(2)



(2)

(0)

(1)

(1)

(1)

(1)

(1)

(1)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(0)

(1)

(0)





(2)

(1)

(1)





(2)

(0)

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(4)







(3)

(0)

(0)
Compute Dice distance and UPGMA clustering
When comparing band patterns in gels, one alternative is: 1) to assign value 1 to the presence of bands and to assign value 0 to their absence; 2) to compare data from each sample (to compute Dice distances); and 3) to perform UPGMA clustering. By clicking below, the process above will be applied.

Be aware that the comparison performed by this service is theoretical and it allows discerning bands that are just one base different. In contrast, those tiny differences cannot be detected in wet lab experiments.


Show distances
Show cluster as text

Compute Pearson distance and UPGMA clustering
When comparing bands patterns in gels, one alternative is: 1) to determinate an array of data for each line composed of the position in the gel (distance) and color in that position; 2) to compare the previous arrays (to compute Pearson's distances); and 3) to perform UPGMA clustering. By clicking below, the process above will be applied.

Be aware that the comparison performed by this service is theoretical and it allows discerning bands that are just one base different. In contrast, those tiny differences cannot be detected in wet lab experiments.


Show distances
Show cluster as text


Show bands
1234567891011121314151617181920212223242526272829303132333435363738394041424344454647484950515253545556575859606162636465
(1)
NA
(1)
NA
(2)
446755
373698
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(2)
643127
203087
(0)
NA
(0)
NA
(1)
NA
(1)
NA
(1)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(4)
449162
352073
110782
7975
(2)
1118492
37445
(2)
1138279
8980
(0)
NA
(1)
NA
(1)
NA
(1)
NA
(1)
NA
(1)
NA
(1)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(1)
NA
(0)
NA
(2)
457658
358736
(1)
NA
(1)
NA
(2)
457645
358728
(0)
NA
(0)
NA
(0)
NA
(4)
309362
299952
91309
8647
(3)
356322
294715
91394
(0)
NA
(0)
NA
All data are shown as number of nucleotides.
NA: simulation is not available


1. Mycoplasma agalactiae
2. Mycoplasma agalactiae PG2
3. Mycoplasma arthritidis 158L3-1
4. Mycoplasma bovis HB0801
5. Mycoplasma bovis Hubei-1
6. Mycoplasma bovis PG45
7. Mycoplasma capricolum subsp. capricolum ATCC 27343
8. Mycoplasma conjunctivae
9. Mycoplasma crocodyli MP145
10. Mycoplasma cynos C142
11. Mycoplasma fermentans JER
12. Mycoplasma fermentans M64
13. Mycoplasma fermentans PG18 DNA, nearly
14. Mycoplasma gallisepticum CA06_2006.052-5-2P
15. Mycoplasma gallisepticum NC06_2006.080-5-2P
16. Mycoplasma gallisepticum NC08_2008.031-4-3P
17. Mycoplasma gallisepticum NC95_13295-2-2P
18. Mycoplasma gallisepticum NC96_1596-4-2P
19. Mycoplasma gallisepticum NY01_2001.047-5-1P
20. Mycoplasma gallisepticum R
21. Mycoplasma gallisepticum S6
22. Mycoplasma gallisepticum VA94_7994-1-7P
23. Mycoplasma gallisepticum WI01_2001.043-13-2P
24. Mycoplasma gallisepticum str. F
25. Mycoplasma gallisepticum str. R(high)
26. Mycoplasma genitalium
27. Mycoplasma genitalium M2288
28. Mycoplasma genitalium M2321
29. Mycoplasma genitalium M6282
30. Mycoplasma genitalium M6320
31. Mycoplasma haemocanis str. Illinois
32. Mycoplasma haemofelis Ohio2
33. Mycoplasma haemofelis str. Langford 1
34. Mycoplasma hominis ATCC 23114
35. Mycoplasma hyopneumoniae 168
36. Mycoplasma hyopneumoniae 168-L
37. Mycoplasma hyopneumoniae 232
38. Mycoplasma hyopneumoniae 7422
39. Mycoplasma hyopneumoniae 7448
40. Mycoplasma hyopneumoniae J
41. Mycoplasma hyorhinis DBS 1050
42. Mycoplasma hyorhinis GDL-1
43. Mycoplasma hyorhinis HUB-1
44. Mycoplasma hyorhinis MCLD
45. Mycoplasma hyorhinis SK76
46. Mycoplasma leachii 99/014/6
47. Mycoplasma leachii PG50
48. Mycoplasma mobile 163K
49. Mycoplasma mycoides subsp. capri LC str. 95010
50. Mycoplasma mycoides subsp. mycoides SC
51. Mycoplasma mycoides subsp. mycoides SC str. Gladysdale MU clone SC5
52. Mycoplasma ovis str. Michigan
53. Mycoplasma parvum str. Indiana
54. Mycoplasma penetrans HF-2
55. Mycoplasma pneumoniae
56. Mycoplasma pneumoniae 309
57. Mycoplasma pneumoniae FH
58. Mycoplasma pneumoniae M129-B7
59. Mycoplasma pulmonis
60. Mycoplasma putrefaciens KS1
61. Mycoplasma putrefaciens Mput9231
62. Mycoplasma suis KI_3806
63. Mycoplasma suis str. Illinois
64. Mycoplasma synoviae 53
65. Mycoplasma wenyonii str. Massachusetts