Locus 4954

Sequence ID 2L_DroMel_CAF1
Location 14,224,960 – 14,225,054
Length 94
Max. P 0.977161
window7859 window7860

overview

Window 9

Location 14,224,960 – 14,225,054
Length 94
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 91.01
Mean single sequence MFE -23.89
Consensus MFE -21.43
Energy contribution -21.82
Covariance contribution 0.39
Combinations/Pair 1.11
Mean z-score -2.06
Structure conservation index 0.90
SVM decision value 1.79
SVM RNA-class probability 0.977161
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14224960 94 + 22407834
GCGCCACUUCCACCCACUUUGACGCCUAUUGGUGUGGUGUAUUGCGAGAGUACGCCUACUUUUUACAUCAUUUAUUAUGUGGGCAAACUAAUAA
((.((((..............(((((....)))))((((((((.....))))))))......................)))))).......... ( -24.20)
>DroSec_CAF1 57745 92 + 1
GCGCCACUUCCACCCACUUUGACGCCUAUUGGCGUGGUGUAUUGCG--AGUACGCCUACUUUUUACAUCAUUUAUUAUGUGGGCAAACUAAUAA
((.((((..............(((((....)))))(((((((....--.)))))))......................)))))).......... ( -25.40)
>DroSim_CAF1 49938 92 + 1
GCGCCACUUCCACCCACUUUGACGCUCAUUGGCGUGGUGUAUUGCG--AGUACGCCUACUUUUUACAUCAUUUAUUAUGUGGGCAAACUAAUAA
((.((((..............(((((....)))))(((((((....--.)))))))......................)))))).......... ( -22.20)
>DroEre_CAF1 58745 92 + 1
GCGUCACUUCCACCCACUUUGACGCCUAUUGGCGUGGUGUAUUGCG--AGUACGCCUACUUUUUACAUCAUUUAUUAUGUGGGCAAAGAAAUAA
......(((...(((((....(((((....)))))(((((((....--.)))))))......................)))))..)))...... ( -25.70)
>DroYak_CAF1 46992 92 + 1
AUGCCACUUCCACCCACUUCGACGCCUAUUGGCGUGGUGUAUUGCG--AGUACGCCUACUUUUUACAUCAUUUAUUAUGUGGGCAAACUAAUAA
............(((((....(((((....)))))(((((((....--.)))))))......................)))))........... ( -25.00)
>DroAna_CAF1 55250 89 + 1
ACUACACCUCCUCCCACU-UGACGCCUUUUGGCG--AUGAAUUGCG--AGUACGCCUACUUUUUACAUCAUUUAUUAUGUGGGCAAGUCAGUAA
(((((.....(((.((.(-(.(((((....))))--.).)).)).)--))...((((((...................))))))..)).))).. ( -20.81)
>consensus
GCGCCACUUCCACCCACUUUGACGCCUAUUGGCGUGGUGUAUUGCG__AGUACGCCUACUUUUUACAUCAUUUAUUAUGUGGGCAAACUAAUAA
............(((((....(((((....)))))((((((((.....))))))))......................)))))........... (-21.43 = -21.82 +   0.39)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,224,960 – 14,225,054
Length 94
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 91.01
Mean single sequence MFE -24.32
Consensus MFE -20.53
Energy contribution -21.08
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -1.58
Structure conservation index 0.84
SVM decision value -0.01
SVM RNA-class probability 0.529607
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14224960 94 - 22407834
UUAUUAGUUUGCCCACAUAAUAAAUGAUGUAAAAAGUAGGCGUACUCUCGCAAUACACCACACCAAUAGGCGUCAAAGUGGGUGGAAGUGGCGC
.......((..(((((...................(((.(((......)))..)))...((.((....)).))....)))))..))........ ( -20.40)
>DroSec_CAF1 57745 92 - 1
UUAUUAGUUUGCCCACAUAAUAAAUGAUGUAAAAAGUAGGCGUACU--CGCAAUACACCACGCCAAUAGGCGUCAAAGUGGGUGGAAGUGGCGC
.......((..(((((...................(((.(((....--)))..)))...(((((....)))))....)))))..))........ ( -25.60)
>DroSim_CAF1 49938 92 - 1
UUAUUAGUUUGCCCACAUAAUAAAUGAUGUAAAAAGUAGGCGUACU--CGCAAUACACCACGCCAAUGAGCGUCAAAGUGGGUGGAAGUGGCGC
..........((((((...................(((.(((....--)))..))).((((.(((.((.....))...)))))))..)))).)) ( -22.10)
>DroEre_CAF1 58745 92 - 1
UUAUUUCUUUGCCCACAUAAUAAAUGAUGUAAAAAGUAGGCGUACU--CGCAAUACACCACGCCAAUAGGCGUCAAAGUGGGUGGAAGUGACGC
((((((((..((((((...................(((.(((....--)))..)))...(((((....)))))....))))))))))))))... ( -28.30)
>DroYak_CAF1 46992 92 - 1
UUAUUAGUUUGCCCACAUAAUAAAUGAUGUAAAAAGUAGGCGUACU--CGCAAUACACCACGCCAAUAGGCGUCGAAGUGGGUGGAAGUGGCAU
.......((..(((((...................(((.(((....--)))..))).(.(((((....))))).)..)))))..))........ ( -26.20)
>DroAna_CAF1 55250 89 - 1
UUACUGACUUGCCCACAUAAUAAAUGAUGUAAAAAGUAGGCGUACU--CGCAAUUCAU--CGCCAAAAGGCGUCA-AGUGGGAGGAGGUGUAGU
..((((.(((.(((((.........((((..........(((....--)))....)))--)(((....)))....-.)))))..)))...)))) ( -23.34)
>consensus
UUAUUAGUUUGCCCACAUAAUAAAUGAUGUAAAAAGUAGGCGUACU__CGCAAUACACCACGCCAAUAGGCGUCAAAGUGGGUGGAAGUGGCGC
.((((..((..(((((...................(((.(((......)))..)))...(((((....)))))....)))))..)))))).... (-20.53 = -21.08 +   0.56)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:54 2006