Locus 5890

Sequence ID 3L_DroMel_CAF1
Location 15,836,015 – 15,836,119
Length 104
Max. P 0.979108
window9388 window9389

overview

Window 8

Location 15,836,015 – 15,836,119
Length 104
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 87.65
Mean single sequence MFE -35.40
Consensus MFE -27.95
Energy contribution -27.94
Covariance contribution -0.01
Combinations/Pair 1.07
Mean z-score -2.46
Structure conservation index 0.79
SVM decision value 1.83
SVM RNA-class probability 0.979108
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15836015 104 + 23771897
UUGUGGGGCUGCUCUUUGGCCGCUUCAAAGACGCAGCCCAUGUUACGAAAACUGCA---------------AAGAAAGGGGUAUUAUUUUUACGAUAUGUCAAUCACUUUCCUAUCUUA
(((((((((((((((((((.....))))))).)))))))....)))))........---------------((((.(((((((.......)))(((......)))....)))).)))). ( -30.50)
>DroSec_CAF1 43109 119 + 1
UUGUGGGGCUGCUCUUUGGCCGCUUCAAAGACGCAGCCCAUGUUACGACAACUGGAAAGAAUGGUGUACCAAAGAAAGGGGUAUUAUUUUUACGAUAUGUCAAACACUUUCCAAUUUUA
..(((((((((((((((((.....))))))).))))))).......((((..(.(.((((((((((..((.......))..)))))))))).).)..))))...)))............ ( -38.40)
>DroSim_CAF1 44290 119 + 1
UUGUGGGGCUGCUCUUUGGCCGCUUCAAAGACGCAGCCCAUGUUACGACAACUGCAAAGAAUGGUGUACCAAAGAAAGGGGUAUUAUUUUUACGAUAUGUCAAUCACUCUCCAAUUUUA
..(((((((((((((((((.....))))))).))))))).......((((......((((((((((..((.......))..))))))))))......))))...)))............ ( -37.10)
>DroEre_CAF1 42133 119 + 1
UUGUGGGGCUGCUCUUUGGCCGCUUCAAAGACGCAGCCCAUGUUACGACAACUGCAAGGAGUGGUGAAUCAAACAGAAGGGUAUUAUUUUUAUGAUAUGUCAAUCACUUUCGGGUGUUA
.....((((((((((((((.....))))))).))))))).......((((.(((...((((((((((.((.....))...(((((((....))))))).)).))))))))))).)))). ( -36.50)
>DroYak_CAF1 84427 119 + 1
UUGUGGGGCUGCUCUUUGGCCGCUUCAAAGACGCAGCCCAUGUUACGACAACUGCAAGGAAUGGUUUGCCAAACAAAAGGGUAUUAUUUUUAUGACAUGUCAAUCACUUUCUGAUUUUA
..(((((((((((((((((.....))))))).))))))).......((((..(((((((((((((..(((.........)))))))))))).)).))))))...)))............ ( -34.50)
>consensus
UUGUGGGGCUGCUCUUUGGCCGCUUCAAAGACGCAGCCCAUGUUACGACAACUGCAAAGAAUGGUGUACCAAAGAAAGGGGUAUUAUUUUUACGAUAUGUCAAUCACUUUCCAAUUUUA
..(((((((((((((((((.....))))))).))))))).......((((...........(((....))).........(((.......)))....))))...)))............ (-27.95 = -27.94 +  -0.01)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,836,015 – 15,836,119
Length 104
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 87.65
Mean single sequence MFE -30.03
Consensus MFE -23.87
Energy contribution -24.07
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.79
SVM decision value 0.64
SVM RNA-class probability 0.809162
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15836015 104 - 23771897
UAAGAUAGGAAAGUGAUUGACAUAUCGUAAAAAUAAUACCCCUUUCUU---------------UGCAGUUUUCGUAACAUGGGCUGCGUCUUUGAAGCGGCCAAAGAGCAGCCCCACAA
.((((.(((.....(((......)))(((.......))).))).))))---------------....(((.....)))..(((((((.((((((.......)))))))))))))..... ( -26.40)
>DroSec_CAF1 43109 119 - 1
UAAAAUUGGAAAGUGUUUGACAUAUCGUAAAAAUAAUACCCCUUUCUUUGGUACACCAUUCUUUCCAGUUGUCGUAACAUGGGCUGCGUCUUUGAAGCGGCCAAAGAGCAGCCCCACAA
...(((((((((((((((.((.....))..))))).............(((....)))..))))))))))..........(((((((.((((((.......)))))))))))))..... ( -33.50)
>DroSim_CAF1 44290 119 - 1
UAAAAUUGGAGAGUGAUUGACAUAUCGUAAAAAUAAUACCCCUUUCUUUGGUACACCAUUCUUUGCAGUUGUCGUAACAUGGGCUGCGUCUUUGAAGCGGCCAAAGAGCAGCCCCACAA
............(((...((((.((.((((((((..((((.........))))....))).))))).)))))).......(((((((.((((((.......)))))))))))))))).. ( -30.70)
>DroEre_CAF1 42133 119 - 1
UAACACCCGAAAGUGAUUGACAUAUCAUAAAAAUAAUACCCUUCUGUUUGAUUCACCACUCCUUGCAGUUGUCGUAACAUGGGCUGCGUCUUUGAAGCGGCCAAAGAGCAGCCCCACAA
............(((...((((.....................((((..((........))...)))).)))).......(((((((.((((((.......)))))))))))))))).. ( -27.95)
>DroYak_CAF1 84427 119 - 1
UAAAAUCAGAAAGUGAUUGACAUGUCAUAAAAAUAAUACCCUUUUGUUUGGCAAACCAUUCCUUGCAGUUGUCGUAACAUGGGCUGCGUCUUUGAAGCGGCCAAAGAGCAGCCCCACAA
............(((...((((........((((((.......)))))).((((........))))...)))).......(((((((.((((((.......)))))))))))))))).. ( -31.60)
>consensus
UAAAAUCGGAAAGUGAUUGACAUAUCGUAAAAAUAAUACCCCUUUCUUUGGUACACCAUUCCUUGCAGUUGUCGUAACAUGGGCUGCGUCUUUGAAGCGGCCAAAGAGCAGCCCCACAA
............(((...((((...............................................)))).......(((((((.((((((.......)))))))))))))))).. (-23.87 = -24.07 +   0.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:02 2006