Locus 6055

Sequence ID 3L_DroMel_CAF1
Location 16,122,194 – 16,122,314
Length 120
Max. P 0.986785
window9699 window9700

overview

Window 9

Location 16,122,194 – 16,122,314
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 83.72
Mean single sequence MFE -36.93
Consensus MFE -28.46
Energy contribution -27.91
Covariance contribution -0.55
Combinations/Pair 1.12
Mean z-score -2.44
Structure conservation index 0.77
SVM decision value 1.14
SVM RNA-class probability 0.921366
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16122194 120 + 23771897
GAGAGACCGCCGCCGCGUUUUUGUUGUCAAAAUUUGAAUUUCAAAUUUGAACAUUUCGGCUGUUAGUUUUGCCUUUGGGCCCACAGCACGUGGAAUUGUUCGGUGUGGCAGCGGUCUCGU
..((((((((.((((((............(((((((.....)))))))(((((.(((.((((((.((...(((....)))..)))))).)).))).)))))..)))))).)))))))).. ( -50.00)
>DroSec_CAF1 7939 104 + 1
GAGAGACCUCCGCCGC-UUUUUGUUGUCAAAAUUUGAAUUUCAAAUUUCCACAUUUCGACUGUUAGUUUCG---------------CACGUGGAAUUGUUUGGUGUGGCAGGGGCCUCAA
..(((.((((.(((((-.......(((..(((((((.....)))))))..))).....((((.((((((((---------------....))))))))..))))))))).)))).))).. ( -31.20)
>DroSim_CAF1 7251 104 + 1
GAGAGACCGCCGCCGC-UUUUUGUUGUCAAAAUUUGAAUUUCAAAUUUCCACAUUUUGGCUGUUAGUUUCG---------------CACGUGGAAUUGCUUGGUGUGGCAGGGGCCUCAA
..(((.((.(((((((-.......(((..(((((((.....)))))))..))).....((((.((((((((---------------....))))))))..))))))))).)))).))).. ( -29.60)
>consensus
GAGAGACCGCCGCCGC_UUUUUGUUGUCAAAAUUUGAAUUUCAAAUUUCCACAUUUCGGCUGUUAGUUUCG_______________CACGUGGAAUUGUUUGGUGUGGCAGGGGCCUCAA
..(((.((((.(((((........(((..(((((((.....)))))))..))).....((((.((((((((...................))))))))..))))))))).)))).))).. (-28.46 = -27.91 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 16,122,194 – 16,122,314
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 83.72
Mean single sequence MFE -37.50
Consensus MFE -28.27
Energy contribution -28.17
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -4.60
Structure conservation index 0.75
SVM decision value 2.05
SVM RNA-class probability 0.986785
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16122194 120 - 23771897
ACGAGACCGCUGCCACACCGAACAAUUCCACGUGCUGUGGGCCCAAAGGCAAAACUAACAGCCGAAAUGUUCAAAUUUGAAAUUCAAAUUUUGACAACAAAAACGCGGCGGCGGUCUCUC
..((((((((((((.(..............((.(((((..(((....))).......)))))))...((((.(((((((.....))))))).))))........).)))))))))))).. ( -47.50)
>DroSec_CAF1 7939 104 - 1
UUGAGGCCCCUGCCACACCAAACAAUUCCACGUG---------------CGAAACUAACAGUCGAAAUGUGGAAAUUUGAAAUUCAAAUUUUGACAACAAAAA-GCGGCGGAGGUCUCUC
..((((((.(((((.(..((((...((((((((.---------------(((.........)))..)))))))).)))).........(((((....))))).-).))))).)))))).. ( -32.60)
>DroSim_CAF1 7251 104 - 1
UUGAGGCCCCUGCCACACCAAGCAAUUCCACGUG---------------CGAAACUAACAGCCAAAAUGUGGAAAUUUGAAAUUCAAAUUUUGACAACAAAAA-GCGGCGGCGGUCUCUC
..((((((.(((((.(.....(((........))---------------).................(((.((((((((.....)))))))).))).......-).))))).)))))).. ( -32.40)
>consensus
UUGAGGCCCCUGCCACACCAAACAAUUCCACGUG_______________CGAAACUAACAGCCGAAAUGUGGAAAUUUGAAAUUCAAAUUUUGACAACAAAAA_GCGGCGGCGGUCUCUC
..((((((.(((((.(.....((........))..................................(((.((((((((.....)))))))).)))........).))))).)))))).. (-28.27 = -28.17 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:25 2006