Locus 6477

Sequence ID 3L_DroMel_CAF1
Location 17,248,130 – 17,248,250
Length 120
Max. P 0.997277
window10439 window10440

overview

Window 9

Location 17,248,130 – 17,248,250
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.50
Mean single sequence MFE -32.86
Consensus MFE -26.77
Energy contribution -28.48
Covariance contribution 1.71
Combinations/Pair 1.02
Mean z-score -2.52
Structure conservation index 0.81
SVM decision value 2.37
SVM RNA-class probability 0.993052
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17248130 120 + 23771897
AUGGCACAAGGUGAGUACCAACCGACCGUGUACUCUGCUGGGCGCCAAAAGUGUUAAAAAAGUGACUUUUAAUGGGUUUAAAUCAAGUAAAAGUUGUUGAAACUUGACUUGAUUUGAGCG
.((((.(..((((((((((........).)))))).)))..).)))).....(((((((.......)))))))..(((((((((((((..(((((.....))))).))))))))))))). ( -37.30)
>DroSec_CAF1 131916 120 + 1
AUGGCACAAGGUGAGUACCAACCGACCGUGUACUCUGCUGGGCGCCAAAAGUGUUAAAAAAGUGACUUUUAAUGGGUUUAAAUCAAGUAAAAGUUGUUGAAACUUGACUUGAUUUCAGCG
.((((.(..((((((((((........).)))))).)))..).)))).....(((((((.......)))))))..(((.(((((((((..(((((.....))))).))))))))).))). ( -33.30)
>DroSim_CAF1 126745 116 + 1
AUGGCACAA-GUGAGUACCAACCGACCGUGUACUCUGCUGGGCGC-AAAAGUGUUAA-AAAGUGACUUUUAAUGGGU-UAAAUCAAGUAAAAGUUGUUGAAACUUGACUUGAUUUGAGCG
..(((((.(-(((((((((........).)))))).))).(((((-....)))))..-...))).)).......(.(-((((((((((..(((((.....))))).))))))))))).). ( -31.10)
>DroEre_CAF1 135191 101 + 1
AUGGCACAAGGUGAGU-------------------UGUUGGGCGCCAAAAGUGUUAAAAAAGUGACUUUUAAUGGGUUUAAAUCAAGUAAAAGUUGUUGAAACUUGACUUGAUUUGAGCG
......((....((((-------------------..((.(((((.....))))).....))..))))....)).(((((((((((((..(((((.....))))).))))))))))))). ( -27.10)
>DroYak_CAF1 138739 120 + 1
AUGGCACAAGGUGAGUACCAACCGACCGUGUACUCUGUUGGGCGCCAAAAGUGUUAAAAAAGUGACUUUUAAUGGGUUUAAAUCAAGUAAAAGUUGUUGAAACUUGACUUGAUUUGAGCG
.((((((..((((....(((((.((........)).))))).))))....))))))...................(((((((((((((..(((((.....))))).))))))))))))). ( -35.50)
>consensus
AUGGCACAAGGUGAGUACCAACCGACCGUGUACUCUGCUGGGCGCCAAAAGUGUUAAAAAAGUGACUUUUAAUGGGUUUAAAUCAAGUAAAAGUUGUUGAAACUUGACUUGAUUUGAGCG
.((((.(..((((((((((........).)))))).)))..).)))).....(((((((.......)))))))..(((((((((((((..(((((.....))))).))))))))))))). (-26.77 = -28.48 +   1.71)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,248,130 – 17,248,250
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.50
Mean single sequence MFE -26.01
Consensus MFE -21.39
Energy contribution -22.84
Covariance contribution 1.45
Combinations/Pair 1.00
Mean z-score -2.75
Structure conservation index 0.82
SVM decision value 2.83
SVM RNA-class probability 0.997277
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17248130 120 - 23771897
CGCUCAAAUCAAGUCAAGUUUCAACAACUUUUACUUGAUUUAAACCCAUUAAAAGUCACUUUUUUAACACUUUUGGCGCCCAGCAGAGUACACGGUCGGUUGGUACUCACCUUGUGCCAU
.....(((((((((.(((((.....)))))..))))))))).......(((((((.....)))))))......((((((..((..((((((.(((....)))))))))..)).)))))). ( -28.10)
>DroSec_CAF1 131916 120 - 1
CGCUGAAAUCAAGUCAAGUUUCAACAACUUUUACUUGAUUUAAACCCAUUAAAAGUCACUUUUUUAACACUUUUGGCGCCCAGCAGAGUACACGGUCGGUUGGUACUCACCUUGUGCCAU
.(((((((((((((.(((((.....)))))..))))))))).......((((((((............))))))))....)))).(.(((((.(((.(((....))).))).)))))).. ( -30.10)
>DroSim_CAF1 126745 116 - 1
CGCUCAAAUCAAGUCAAGUUUCAACAACUUUUACUUGAUUUA-ACCCAUUAAAAGUCACUUU-UUAACACUUUU-GCGCCCAGCAGAGUACACGGUCGGUUGGUACUCAC-UUGUGCCAU
.....(((((((((.(((((.....)))))..)))))))))(-(((..(((((((....)))-)))).(((((.-((.....)))))))........))))(((((....-..))))).. ( -26.10)
>DroEre_CAF1 135191 101 - 1
CGCUCAAAUCAAGUCAAGUUUCAACAACUUUUACUUGAUUUAAACCCAUUAAAAGUCACUUUUUUAACACUUUUGGCGCCCAACA-------------------ACUCACCUUGUGCCAU
.....(((((((((.(((((.....)))))..))))))))).......(((((((.....)))))))......((((((......-------------------.........)))))). ( -18.16)
>DroYak_CAF1 138739 120 - 1
CGCUCAAAUCAAGUCAAGUUUCAACAACUUUUACUUGAUUUAAACCCAUUAAAAGUCACUUUUUUAACACUUUUGGCGCCCAACAGAGUACACGGUCGGUUGGUACUCACCUUGUGCCAU
.....(((((((((.(((((.....)))))..))))))))).......(((((((.....)))))))......((((((......((((((.(((....))))))))).....)))))). ( -27.60)
>consensus
CGCUCAAAUCAAGUCAAGUUUCAACAACUUUUACUUGAUUUAAACCCAUUAAAAGUCACUUUUUUAACACUUUUGGCGCCCAGCAGAGUACACGGUCGGUUGGUACUCACCUUGUGCCAU
.....(((((((((.(((((.....)))))..))))))))).......(((((((.....)))))))......((((((......((((((.(((....))))))))).....)))))). (-21.39 = -22.84 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:31 2006