Locus 3782

Sequence ID X_DroMel_CAF1
Location 10,019,888 – 10,020,035
Length 147
Max. P 0.998372
window6210 window6211

overview

Window 0

Location 10,019,888 – 10,019,995
Length 107
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 72.44
Mean single sequence MFE -35.15
Consensus MFE -17.28
Energy contribution -16.96
Covariance contribution -0.32
Combinations/Pair 1.33
Mean z-score -2.73
Structure conservation index 0.49
SVM decision value 1.75
SVM RNA-class probability 0.975405
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10019888 107 + 22224390
UUACUACUGCUGUUAACCCUCCAAUACCAACGCGACCCCCCCACUACCCCUUUCUUUUUUACAUGUAUAUGUGAAGAGGGGGGGGGGGGGCUUGUG-AGAAAGAAGGU
...............(((.((.........((((((((((((....(((((((((...((((((....)))))))))))))))))))))).)))))-.....)).))) ( -38.64)
>DroEre_CAF1 27270 96 + 1
UCACUACUGCUGUUAACCCUCCAAUACCACCACCCCUCCCCC----UCCCUUGCCAUCUUACAAGUAUAUGUGG-----GGGAAGGGGGGC--GUG-CGAAAGGAGCC
..................((((.....((((.((((((((((----.(.((((........)))).....).))-----))).))))).).--)))-.....)))).. ( -30.10)
>DroYak_CAF1 23703 95 + 1
UUACUACUGCUGUUAACCCUCCAAUACCAUUCUCUUUUCCCC----UCCCUUACCAUUUUACAUGUAUAAGUGG-----G--AGGGGGGGC--GAGGGGGAAGGAGAC
..............................((((((((((((----(((((..((.((((((........))))-----)--)))..))).--)))))))))))))). ( -36.70)
>consensus
UUACUACUGCUGUUAACCCUCCAAUACCAACACCACUCCCCC____UCCCUUACCAUUUUACAUGUAUAUGUGG_____GGGAGGGGGGGC__GUG_AGAAAGGAGAC
..................((((........(((...((((((....((((........((((........)))).....)))).))))))...)))......)))).. (-17.28 = -16.96 +  -0.32)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 1

Location 10,019,916 – 10,020,035
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 72.41
Mean single sequence MFE -47.50
Consensus MFE -24.23
Energy contribution -23.03
Covariance contribution -1.20
Combinations/Pair 1.43
Mean z-score -3.15
Structure conservation index 0.51
SVM decision value 3.08
SVM RNA-class probability 0.998372
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10019916 119 + 22224390
AACGCGACCCCCCCACUACCCCUUUCUUUUUUACAUGUAUAUGUGAAGAGGGGGGGGGGGGGCUUGUG-AGAAAGAAGGUCGGAAAUGGGGGCGGGGUCGAGGCAAAAACGAUGUGGAGC
..(.((((((((((.((((((((..(((((((((((....)))))))))))..))))).((.(((.(.-....).))).)).....)))))).))))))).).................. ( -51.70)
>DroEre_CAF1 27298 108 + 1
ACCACCCCUCCCCC----UCCCUUGCCAUCUUACAAGUAUAUGUGG-----GGGAAGGGGGGC--GUG-CGAAAGGAGCCCACAAUUGGGGGCGGGGUCGAGGCAAAAACGAUGUGGAGC
.(((((((.(((((----.(((((.((..((((((......)))))-----))))))))((((--.(.-(....).)))))......))))).)))((((.........))))))))... ( -48.40)
>DroYak_CAF1 23731 107 + 1
AUUCUCUUUUCCCC----UCCCUUACCAUUUUACAUGUAUAAGUGG-----G--AGGGGGGGC--GAGGGGGAAGGAGACCGGAAUUGGGGGCGGGGUCGAGGCAGCAACGAUGUGAAGC
..((((((((((((----(((((..((.((((((........))))-----)--)))..))).--)))))))))))))).....((((...((...((....)).))..))))....... ( -42.40)
>consensus
AACACCACUCCCCC____UCCCUUACCAUUUUACAUGUAUAUGUGG_____GGGAGGGGGGGC__GUG_AGAAAGGAGACCGGAAUUGGGGGCGGGGUCGAGGCAAAAACGAUGUGGAGC
.(((((((.(((((....((((((.((...((((........)))).....)).))))))..............((...))......))))).)))((((.........))))))))... (-24.23 = -23.03 +  -1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:19 2006