Locus 4873

Sequence ID 3L_DroMel_CAF1
Location 13,609,864 – 13,609,984
Length 120
Max. P 0.878894
window7692 window7693

overview

Window 2

Location 13,609,864 – 13,609,984
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 96.17
Mean single sequence MFE -30.62
Consensus MFE -28.38
Energy contribution -29.22
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -1.24
Structure conservation index 0.93
SVM decision value 0.91
SVM RNA-class probability 0.878894
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13609864 120 + 23771897
GUCGUAUGAGUGAUAUUAAUUUGACUUUAAGUCGCUCGUCCUGCAGCCGAGGAAUAUCAAACGUAACACGUCAACGUAGAACGCAAGCGAACGUAUGCAAUUUACGUGACAUCAUUACGU
..(((((((.(((((((.....(((.....))).((((.(.....).)))).)))))))..........((((.((((((..(((.((....)).)))..)))))))))).))).)))). ( -30.80)
>DroSec_CAF1 17022 120 + 1
GUCGUAUGAGUGAUAUUAAUUUGACUUUAAGUCGCUCGUCCUGCAGCCGAGGAAUAUCAAACGUAACACGUCAACGUAGAACGCAAGCGAACGUAUGCAAUUUACGUGACAUCAUUACGU
..(((((((.(((((((.....(((.....))).((((.(.....).)))).)))))))..........((((.((((((..(((.((....)).)))..)))))))))).))).)))). ( -30.80)
>DroSim_CAF1 26015 120 + 1
GUCGUAUGAGUGAUAUUAAUUUGACUUUAAGUCGCUCGUCCUGCAGCCCAGGAAUAUCAAACGUAACACGUCAACGUAGAACGCAAGCGAACGUAUGCAAUUUACGUGACAUCAUUACGU
......((((((((.((((.......))))))))))))(((((.....))))).......((((((...((((.((((((..(((.((....)).)))..))))))))))....)))))) ( -33.20)
>DroEre_CAF1 19656 120 + 1
GUCGUAUGAGUGAUAUUAAUUUGACUUUAAGUCGCUCGUCCUGCAGCCGAGGAAUAUCAAACGUAACACGUCAACGUAGAACGCAAGCGAACGUAUGCAAUUUACGUGACAUCAUUACGU
..(((((((.(((((((.....(((.....))).((((.(.....).)))).)))))))..........((((.((((((..(((.((....)).)))..)))))))))).))).)))). ( -30.80)
>DroYak_CAF1 23842 120 + 1
GUCGUAUGAGUGAUAUUAAUUUGACUUUAAGUCGCUCGUCCUGCAGCCGAGGAAUAUCAAACGUAACACGUCAACGUAGAGCGCAAGCGAACGUAUGCAAUUUACGUGACAUCAUUACGU
..(((((((.(((((((.....(((.....))).((((.(.....).)))).)))))))..........((((.((((((..(((.((....)).)))..)))))))))).))).)))). ( -32.10)
>DroAna_CAF1 52931 112 + 1
GUCGUAUGAGUGAUAUUAAUUUGACUUUAAGUCGCUCGU-CUGCAGCCGAGGAAUGUCUAACGUAACACGUCAACGU-------AAGCAAGCGUAUGCAAUUUACGUGACAUCAUUACGU
((.(.(((((((((.((((.......)))))))))))))-).))...((((..(((((..((((((.(((....)))-------..(((......)))...)))))))))))..)).)). ( -26.00)
>consensus
GUCGUAUGAGUGAUAUUAAUUUGACUUUAAGUCGCUCGUCCUGCAGCCGAGGAAUAUCAAACGUAACACGUCAACGUAGAACGCAAGCGAACGUAUGCAAUUUACGUGACAUCAUUACGU
((.(.(((((((((.((((.......))))))))))))).).))................((((((...((((.((((((..(((.((....)).)))..))))))))))....)))))) (-28.38 = -29.22 +   0.83)

alignment

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secondary structure

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dotplot

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Window 3

Location 13,609,864 – 13,609,984
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 96.17
Mean single sequence MFE -30.72
Consensus MFE -26.82
Energy contribution -27.82
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.33
Structure conservation index 0.87
SVM decision value 0.06
SVM RNA-class probability 0.562047
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13609864 120 - 23771897
ACGUAAUGAUGUCACGUAAAUUGCAUACGUUCGCUUGCGUUCUACGUUGACGUGUUACGUUUGAUAUUCCUCGGCUGCAGGACGAGCGACUUAAAGUCAAAUUAAUAUCACUCAUACGAC
(((((((.((((((((((...((((..(....)..))))...)))).))))))))))))).(((((((.((((.........)))).(((.....))).....))))))).......... ( -31.40)
>DroSec_CAF1 17022 120 - 1
ACGUAAUGAUGUCACGUAAAUUGCAUACGUUCGCUUGCGUUCUACGUUGACGUGUUACGUUUGAUAUUCCUCGGCUGCAGGACGAGCGACUUAAAGUCAAAUUAAUAUCACUCAUACGAC
(((((((.((((((((((...((((..(....)..))))...)))).))))))))))))).(((((((.((((.........)))).(((.....))).....))))))).......... ( -31.40)
>DroSim_CAF1 26015 120 - 1
ACGUAAUGAUGUCACGUAAAUUGCAUACGUUCGCUUGCGUUCUACGUUGACGUGUUACGUUUGAUAUUCCUGGGCUGCAGGACGAGCGACUUAAAGUCAAAUUAAUAUCACUCAUACGAC
(((((((.((((((((((...((((..(....)..))))...)))).))))))))))))).(((((((((((.....))))).....(((.....)))......)))))).......... ( -32.90)
>DroEre_CAF1 19656 120 - 1
ACGUAAUGAUGUCACGUAAAUUGCAUACGUUCGCUUGCGUUCUACGUUGACGUGUUACGUUUGAUAUUCCUCGGCUGCAGGACGAGCGACUUAAAGUCAAAUUAAUAUCACUCAUACGAC
(((((((.((((((((((...((((..(....)..))))...)))).))))))))))))).(((((((.((((.........)))).(((.....))).....))))))).......... ( -31.40)
>DroYak_CAF1 23842 120 - 1
ACGUAAUGAUGUCACGUAAAUUGCAUACGUUCGCUUGCGCUCUACGUUGACGUGUUACGUUUGAUAUUCCUCGGCUGCAGGACGAGCGACUUAAAGUCAAAUUAAUAUCACUCAUACGAC
(((((((.((((((((((.(.((((..(....)..)))).).)))).))))))))))))).(((((((.((((.........)))).(((.....))).....))))))).......... ( -30.70)
>DroAna_CAF1 52931 112 - 1
ACGUAAUGAUGUCACGUAAAUUGCAUACGCUUGCUU-------ACGUUGACGUGUUACGUUAGACAUUCCUCGGCUGCAG-ACGAGCGACUUAAAGUCAAAUUAAUAUCACUCAUACGAC
(((((((.(((((((((((...(((......)))))-------))).))))))))))))).........((((.......-.)))).(((.....)))...................... ( -26.50)
>consensus
ACGUAAUGAUGUCACGUAAAUUGCAUACGUUCGCUUGCGUUCUACGUUGACGUGUUACGUUUGAUAUUCCUCGGCUGCAGGACGAGCGACUUAAAGUCAAAUUAAUAUCACUCAUACGAC
(((((((.((((((((((...((((..(....)..))))...)))).)))))))))))))..((((((.((((.........)))).(((.....))).....))))))........... (-26.82 = -27.82 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:49 2006