Locus 2648

Sequence ID 2R_DroMel_CAF1
Location 9,344,863 – 9,344,976
Length 113
Max. P 0.997521
window4359 window4360

overview

Window 9

Location 9,344,863 – 9,344,976
Length 113
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 92.78
Mean single sequence MFE -34.76
Consensus MFE -30.66
Energy contribution -30.02
Covariance contribution -0.64
Combinations/Pair 1.16
Mean z-score -2.16
Structure conservation index 0.88
SVM decision value 2.88
SVM RNA-class probability 0.997521
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9344863 113 + 20766785
AUAAUACGAAGGUGGGGUUUUCCGAUGGGCGGUACGUAUUGGUAAUUUGUUACCUAGCUACCGAGUACCGUUAGCAAUUACCCACCAUCCGGAAAAAAUGGGAAAAA--AAGUGG
....(((...((((((..((.(..((((.(((((.((...(((((....)))))..)))))))....))))..).))...)))))).((((.......)))).....--..))). ( -33.90)
>DroSec_CAF1 15052 115 + 1
AUAAUACGAAGGUGGGGUUUUCCCAUGGGCGGUACGUAUUGGUAAUUUGUUACCUAGCUACCGAGUACUGUUAGCAAUUACCCACCAUCCGGAAAAAAUGGGGAAAAAUAAGUGG
....(((....)))...(((((((((((((((((.((...(((((....)))))..))))))).....((....))....))).((....)).....)))))))))......... ( -29.30)
>DroSim_CAF1 15630 113 + 1
AUAAUACGAAGGUGGGGUUUUCCGAUGGGCGGUACGUAUUGGUAAUUUGUUACCUAGCUACCGAGUACCGUUAGCAAUUACCCACCAUCCGGAAAAAAUGGGGAAAA--AAGUGG
....(((...((((((..((.(..((((.(((((.((...(((((....)))))..)))))))....))))..).))...)))))).((((.......)))).....--..))). ( -33.90)
>DroEre_CAF1 15320 111 + 1
AUUAUAGGAAGGUGGGGUUUUUGGAUGGGCGGUACGUAUUGGUAGUUUGUUACCUAGCUACCGAGUACCGUUAGCAAUUACCCACCAUCCGGAAAAAAUGGGAAA----AACUGC
......(((.((((((....(((....((((((((...(((((((((........)))))))))))))))))..)))...)))))).)))...............----...... ( -40.10)
>DroYak_CAF1 18146 111 + 1
AUAAUACGAGGGUGGGGUUUUUGGACGGGCGGUACGUAUUGGUAGUUUGUUACCUAGCUACCGAGUACCGUUAGCAAUUACCCACCAUCCGGAAAAAAUGUGAAA----AACUGG
......((..((((((....(((....((((((((...(((((((((........)))))))))))))))))..)))...))))))...))..............----...... ( -36.60)
>consensus
AUAAUACGAAGGUGGGGUUUUCCGAUGGGCGGUACGUAUUGGUAAUUUGUUACCUAGCUACCGAGUACCGUUAGCAAUUACCCACCAUCCGGAAAAAAUGGGAAAAA__AAGUGG
....(((...((((((..((.(..((((.(((((.((...(((((....)))))..)))))))....))))..).))...)))))).((((.......)))).........))). (-30.66 = -30.02 +  -0.64)

alignment

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secondary structure

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dotplot

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Window 0

Location 9,344,863 – 9,344,976
Length 113
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 92.78
Mean single sequence MFE -26.56
Consensus MFE -21.66
Energy contribution -21.86
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.82
SVM decision value 0.75
SVM RNA-class probability 0.841322
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9344863 113 - 20766785
CCACUU--UUUUUCCCAUUUUUUCCGGAUGGUGGGUAAUUGCUAACGGUACUCGGUAGCUAGGUAACAAAUUACCAAUACGUACCGCCCAUCGGAAAACCCCACCUUCGUAUUAU
......--...........(((((((.((((..((((...((((.((.....)).))))..(((((....)))))......))))..)))))))))))................. ( -27.30)
>DroSec_CAF1 15052 115 - 1
CCACUUAUUUUUCCCCAUUUUUUCCGGAUGGUGGGUAAUUGCUAACAGUACUCGGUAGCUAGGUAACAAAUUACCAAUACGUACCGCCCAUGGGAAAACCCCACCUUCGUAUUAU
........((((((((((((.....)))))((((((....((((...(....)..))))..(((((....)))))..........)))))))))))))................. ( -25.50)
>DroSim_CAF1 15630 113 - 1
CCACUU--UUUUCCCCAUUUUUUCCGGAUGGUGGGUAAUUGCUAACGGUACUCGGUAGCUAGGUAACAAAUUACCAAUACGUACCGCCCAUCGGAAAACCCCACCUUCGUAUUAU
......--...........(((((((.((((..((((...((((.((.....)).))))..(((((....)))))......))))..)))))))))))................. ( -27.30)
>DroEre_CAF1 15320 111 - 1
GCAGUU----UUUCCCAUUUUUUCCGGAUGGUGGGUAAUUGCUAACGGUACUCGGUAGCUAGGUAACAAACUACCAAUACGUACCGCCCAUCCAAAAACCCCACCUUCCUAUAAU
......----...............(((.((((((...(((....((((((..(((((...(....)...))))).....))))))......)))....)))))).)))...... ( -27.80)
>DroYak_CAF1 18146 111 - 1
CCAGUU----UUUCACAUUUUUUCCGGAUGGUGGGUAAUUGCUAACGGUACUCGGUAGCUAGGUAACAAACUACCAAUACGUACCGCCCGUCCAAAAACCCCACCCUCGUAUUAU
......----................((.((((((...(((...((((....(((((....((((......))))......))))).)))).)))....)))))).))....... ( -24.90)
>consensus
CCACUU__UUUUUCCCAUUUUUUCCGGAUGGUGGGUAAUUGCUAACGGUACUCGGUAGCUAGGUAACAAAUUACCAAUACGUACCGCCCAUCGGAAAACCCCACCUUCGUAUUAU
..........................((.((((((..........((((((...(((....((((......))))..))))))))).............)))))).))....... (-21.66 = -21.86 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:21 2006