Locus 5601

Sequence ID X_DroMel_CAF1
Location 14,459,694 – 14,459,814
Length 120
Max. P 0.860913
window9096 window9097

overview

Window 6

Location 14,459,694 – 14,459,814
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.64
Mean single sequence MFE -42.23
Consensus MFE -38.39
Energy contribution -38.17
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.30
Structure conservation index 0.91
SVM decision value 0.83
SVM RNA-class probability 0.860913
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14459694 120 + 22224390
UGCAGCAGCUUUUGUUUUCGGUGUCGUUUCGCGUGCCGCAGCUGCAACAUUUUCCUUGUCAACGGCGGCGGCGGCAGAAACAGCGAUUACAAAUUGUUUGCUGCCUGUGGCCAAAUAAAU
.((((((((.(((((..(((.(((...(((((.((((((.((((..(((.......)))...)))).)))))))).)))))).)))..)))))..).)))))))................ ( -42.90)
>DroEre_CAF1 4587 117 + 1
UGCAGCAGCUUUUGUUUUCGGUGUCGUUUCGCGUGCCGCAGCUGCAACAUUUUCCUUGUCAACGGCG---GCGGCAGAAACGGCGAUUACAAAUUGUUUGCUGCCUGCGGCCAAAUAAAU
.((((((((.(((((..((...((((((((...((((((.((((..(((.......)))...)))).---))))))))))))))))..)))))......)))).))))............ ( -43.70)
>DroYak_CAF1 5578 117 + 1
UGCAGCAGCUUUUGUUUUCGGUGUCGUUUCGCGUGCCGCAGCUGCAACAUUUUCCUUGUCAACGGCG---GCGGCAGAAACAGCGAUUACAAAUUGUUUGCUGCUUGUGGCCAAAUAAAU
.((((((((.(((((..(((.(((((.....))((((((.((((..(((.......)))...)))).---))))))...))).)))..)))))..).)))))))................ ( -40.10)
>consensus
UGCAGCAGCUUUUGUUUUCGGUGUCGUUUCGCGUGCCGCAGCUGCAACAUUUUCCUUGUCAACGGCG___GCGGCAGAAACAGCGAUUACAAAUUGUUUGCUGCCUGUGGCCAAAUAAAU
.((((((((.(((((..(((.(((((.....))((((((.((((..(((.......)))...))))....))))))...))).)))..)))))..).)))))))................ (-38.39 = -38.17 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,459,694 – 14,459,814
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.64
Mean single sequence MFE -37.77
Consensus MFE -31.85
Energy contribution -31.63
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.15
Structure conservation index 0.84
SVM decision value 0.11
SVM RNA-class probability 0.587182
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14459694 120 - 22224390
AUUUAUUUGGCCACAGGCAGCAAACAAUUUGUAAUCGCUGUUUCUGCCGCCGCCGCCGUUGACAAGGAAAAUGUUGCAGCUGCGGCACGCGAAACGACACCGAAAACAAAAGCUGCUGCA
................((((((.....(((((..(((.((((.....(((.(((((.((((.(((........))))))).)))))..)))....)))).)))..)))))...)))))). ( -37.20)
>DroEre_CAF1 4587 117 - 1
AUUUAUUUGGCCGCAGGCAGCAAACAAUUUGUAAUCGCCGUUUCUGCCGC---CGCCGUUGACAAGGAAAAUGUUGCAGCUGCGGCACGCGAAACGACACCGAAAACAAAAGCUGCUGCA
............((((.((((......(((((..(((.((((((.((.((---(((.((((.(((........))))))).)))))..))))))))....)))..))))).)))))))). ( -39.30)
>DroYak_CAF1 5578 117 - 1
AUUUAUUUGGCCACAAGCAGCAAACAAUUUGUAAUCGCUGUUUCUGCCGC---CGCCGUUGACAAGGAAAAUGUUGCAGCUGCGGCACGCGAAACGACACCGAAAACAAAAGCUGCUGCA
......(((....)))((((((.....(((((..(((.((((((.((.((---(((.((((.(((........))))))).)))))..))))))))....)))..)))))...)))))). ( -36.80)
>consensus
AUUUAUUUGGCCACAGGCAGCAAACAAUUUGUAAUCGCUGUUUCUGCCGC___CGCCGUUGACAAGGAAAAUGUUGCAGCUGCGGCACGCGAAACGACACCGAAAACAAAAGCUGCUGCA
................((((((.....(((((..(((.((((((((((((....((.((.((((.......)))))).)).))))))...))))))....)))..)))))...)))))). (-31.85 = -31.63 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:00 2006