Locus 5243

Sequence ID X_DroMel_CAF1
Location 13,683,348 – 13,683,547
Length 199
Max. P 0.906390
window8494 window8495

overview

Window 4

Location 13,683,348 – 13,683,467
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.10
Mean single sequence MFE -16.87
Consensus MFE -15.77
Energy contribution -15.77
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.93
SVM decision value 0.01
SVM RNA-class probability 0.538792
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13683348 119 - 22224390
AAACGACGAUUUCGUUACGAUGGAAAACAAUUUUAACUUGUCUAAAACCAAUUAAAUUGUUAACAGCAACUAACUCAUGUAUGUAAAUACAUUAAAUGGAUACCAUCUUCAAAAA-GAAA
.(((((.....)))))..(((((..((((((((....(((........)))..))))))))........(((....((((((....))))))....)))...)))))........-.... ( -19.20)
>DroSim_CAF1 649 119 - 1
AAACGACGAUUUCGUUACGAUGAAAAACAAUUUUAACUUGUCUAAAACCAAUUAAAUUGUUAACAGCAACUAACUCAUGUAUGUAAAUACAUUAAAUGGAUACCAUCUCAAAAAA-GAAA
.(((((.....)))))..((((...((((((((....(((........)))..))))))))........(((....((((((....))))))....)))....))))........-.... ( -15.70)
>DroYak_CAF1 656 120 - 1
AAACGACACUUUCGUUACGAUGAACAACAAUUUUAACUUGUCUAAAACCAAUUAAAUUGUUAACAGCAACUAACUCAUGUAUGUAAAUACAUUAAAUGGAUACCAUCUCAAAAAAGGAAA
.(((((.....)))))..((((...((((((((....(((........)))..))))))))........(((....((((((....))))))....)))....))))............. ( -15.70)
>consensus
AAACGACGAUUUCGUUACGAUGAAAAACAAUUUUAACUUGUCUAAAACCAAUUAAAUUGUUAACAGCAACUAACUCAUGUAUGUAAAUACAUUAAAUGGAUACCAUCUCAAAAAA_GAAA
.(((((.....)))))..((((...((((((((....(((........)))..))))))))........(((....((((((....))))))....)))....))))............. (-15.77 = -15.77 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 13,683,427 – 13,683,547
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -21.57
Consensus MFE -20.10
Energy contribution -20.43
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.93
SVM decision value 1.05
SVM RNA-class probability 0.906390
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13683427 120 + 22224390
CAAGUUAAAAUUGUUUUCCAUCGUAACGAAAUCGUCGUUUCAUUUCUUUCCAUUUUGCUCAACACUAAAAUCAAAGUGUAUCCAAAACUGAUUAAAAUGAUUUUGACUACAAUAUAGAAC
..(((((((((..((((..((((.(((((.....))))).)...........(((((....(((((........)))))...)))))..))).))))..)))))))))............ ( -21.70)
>DroSim_CAF1 728 120 + 1
CAAGUUAAAAUUGUUUUUCAUCGUAACGAAAUCGUCGUUUCAUUUCUUUCCAUUUUGCUCAACACUAAAAUCAAAGUGUAUCCAAAACUGAUUAAAAUGAUUUUGACUACAAUAUAGAAC
..(((((((((..((((..((((.(((((.....))))).)...........(((((....(((((........)))))...)))))..))).))))..)))))))))............ ( -22.20)
>DroYak_CAF1 736 119 + 1
CAAGUUAAAAUUGUUGUUCAUCGUAACGAAAGUGUCGUUUCAUUUCAUUUCAUUUUGCUCAACACUAA-AUCAAAGUGUAUCCAAAACUGAUUCAAAUGAUUUUGACUACAAUAUAGAAC
...(((.....((((((........((....))((((..((((((....((((((((....(((((..-.....)))))...))))).)))...))))))...)))).))))))...))) ( -20.80)
>consensus
CAAGUUAAAAUUGUUUUUCAUCGUAACGAAAUCGUCGUUUCAUUUCUUUCCAUUUUGCUCAACACUAAAAUCAAAGUGUAUCCAAAACUGAUUAAAAUGAUUUUGACUACAAUAUAGAAC
..(((((((((..(((...((((.(((((.....))))).)...........(((((....(((((........)))))...)))))..)))..)))..)))))))))............ (-20.10 = -20.43 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:06 2006