Locus 5300

Sequence ID 3L_DroMel_CAF1
Location 14,658,130 – 14,658,230
Length 100
Max. P 0.933213
window8376 window8377

overview

Window 6

Location 14,658,130 – 14,658,230
Length 100
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 95.33
Mean single sequence MFE -19.76
Consensus MFE -17.46
Energy contribution -18.24
Covariance contribution 0.78
Combinations/Pair 1.04
Mean z-score -2.07
Structure conservation index 0.88
SVM decision value 0.38
SVM RNA-class probability 0.712608
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14658130 100 + 23771897
GUGCAGAAGGCUUAUAUACAUAAUAUAGUUUGAAUUUCUCUUCCUACCCUUUGACAUAAUGUUUAAAAAAAAAAGAAAUUCUUCUGCAGAGAAAUAUAAU
.(((((((((((.((((.....)))))))))((((((((.............(((.....)))..........)))))))).))))))............ ( -16.60)
>DroSec_CAF1 7910 99 + 1
GUGCAGAAGGCUUAUGUACAAAAUAUAGUUUGUAUUUCUCUUCCUACACUUUGACAUAAUGUUUAUAAAA-AAAGAGAUUCUUCUGCAGAGAAAUAUAAU
.(((((((((.....(((((((......))))))).((((((..........(((.....))).......-.)))))).)))))))))............ ( -21.27)
>DroSim_CAF1 7959 100 + 1
GUGCAGAAGGCUUAUAUACAAAAUAUAGUUUGUAUUUCUCUUCCUACACUUUGACAUAAUGUUUAUAAAAAAAAGAGAUUCUUCUGCAGAGAAAUAUAAU
.(((((((((.....(((((((......))))))).((((((..........(((.....))).........)))))).)))))))))............ ( -21.41)
>consensus
GUGCAGAAGGCUUAUAUACAAAAUAUAGUUUGUAUUUCUCUUCCUACACUUUGACAUAAUGUUUAUAAAAAAAAGAGAUUCUUCUGCAGAGAAAUAUAAU
.(((((((((.....(((((((......))))))).((((((..........(((.....))).........)))))).)))))))))............ (-17.46 = -18.24 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 14,658,130 – 14,658,230
Length 100
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 95.33
Mean single sequence MFE -22.82
Consensus MFE -19.72
Energy contribution -20.17
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -3.17
Structure conservation index 0.86
SVM decision value 1.23
SVM RNA-class probability 0.933213
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14658130 100 - 23771897
AUUAUAUUUCUCUGCAGAAGAAUUUCUUUUUUUUUUAAACAUUAUGUCAAAGGGUAGGAAGAGAAAUUCAAACUAUAUUAUGUAUAUAAGCCUUCUGCAC
............(((((((((((((((((((((......................))))))))))))))....(((((.....)))))....))))))). ( -20.55)
>DroSec_CAF1 7910 99 - 1
AUUAUAUUUCUCUGCAGAAGAAUCUCUUU-UUUUAUAAACAUUAUGUCAAAGUGUAGGAAGAGAAAUACAAACUAUAUUUUGUACAUAAGCCUUCUGCAC
............((((((((......(((-......)))..((((((((((((((((....(....).....)))))))))).))))))..)))))))). ( -23.90)
>DroSim_CAF1 7959 100 - 1
AUUAUAUUUCUCUGCAGAAGAAUCUCUUUUUUUUAUAAACAUUAUGUCAAAGUGUAGGAAGAGAAAUACAAACUAUAUUUUGUAUAUAAGCCUUCUGCAC
............((((((((..(((((((((.......(((((.......)))))))))))))).(((((((......)))))))......)))))))). ( -24.01)
>consensus
AUUAUAUUUCUCUGCAGAAGAAUCUCUUUUUUUUAUAAACAUUAUGUCAAAGUGUAGGAAGAGAAAUACAAACUAUAUUUUGUAUAUAAGCCUUCUGCAC
............((((((((.....................((((((((((((((((....(....).....)))))))))).))))))..)))))))). (-19.72 = -20.17 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:41 2006