Locus 7384

Sequence ID 2L_DroMel_CAF1
Location 20,546,335 – 20,546,440
Length 105
Max. P 0.863431
window11861 window11862

overview

Window 1

Location 20,546,335 – 20,546,440
Length 105
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 94.29
Mean single sequence MFE -25.09
Consensus MFE -19.67
Energy contribution -19.90
Covariance contribution 0.23
Combinations/Pair 1.06
Mean z-score -2.57
Structure conservation index 0.78
SVM decision value 0.20
SVM RNA-class probability 0.630805
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20546335 105 + 22407834
AUGAAAUACAAGUGCAAAUAGGUGAACAAAAUGUUUUGCAAAUUCAGUUCGGUUUACGCAUGCACUUCGUACGUAAACAUUAAUUGCGUGAACAAUUAAGUGAUA
.((((.......((((((((.(....)....)).)))))).......))))(((((((.(((.....))).))))))).(((((((......)))))))...... ( -18.94)
>DroSec_CAF1 69253 105 + 1
AUGAAAUGAAAGUGCAAAUAGGAGAACAAAAUAUUUCGCAAAUUCAUUUCGGUUUACGCAUGCACUUCGUGCGUAAGCAUUAAUUGCGUGAACAAUUAAGAGAUA
.(((((((((..((((((((...........))))).)))..)))))))))(((((((((((.....))))))))))).(((((((......)))))))...... ( -32.00)
>DroSim_CAF1 69882 105 + 1
AUGAAAUGAAAGUGCAAAUAGGUGAACAAAAUAUUUUGCAAAUUCAGUUCGGUUUACGCAUGCACUUCGUACGUAAGCAUUAAUUGCGUGAACAAUUAAGAGAUA
.((((.((((..((((((...((.......))..))))))..)))).))))((((((((((((.............))).....)))))))))............ ( -24.32)
>consensus
AUGAAAUGAAAGUGCAAAUAGGUGAACAAAAUAUUUUGCAAAUUCAGUUCGGUUUACGCAUGCACUUCGUACGUAAGCAUUAAUUGCGUGAACAAUUAAGAGAUA
.((((.((((..((((((((...........))))).)))..)))).))))(((((((.(((.....))).))))))).(((((((......)))))))...... (-19.67 = -19.90 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 20,546,335 – 20,546,440
Length 105
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 94.29
Mean single sequence MFE -21.63
Consensus MFE -19.45
Energy contribution -19.12
Covariance contribution -0.33
Combinations/Pair 1.10
Mean z-score -2.29
Structure conservation index 0.90
SVM decision value 0.84
SVM RNA-class probability 0.863431
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20546335 105 - 22407834
UAUCACUUAAUUGUUCACGCAAUUAAUGUUUACGUACGAAGUGCAUGCGUAAACCGAACUGAAUUUGCAAAACAUUUUGUUCACCUAUUUGCACUUGUAUUUCAU
....((((((((((....)))))))).))........((((((((.(.(((((..((((.((((.(.....).)))).)))).....))))).).)))))))).. ( -19.50)
>DroSec_CAF1 69253 105 - 1
UAUCUCUUAAUUGUUCACGCAAUUAAUGCUUACGCACGAAGUGCAUGCGUAAACCGAAAUGAAUUUGCGAAAUAUUUUGUUCUCCUAUUUGCACUUUCAUUUCAU
......((((((((....))))))))...(((((((.(.....).)))))))...((((((((..((((((................))))))..)))))))).. ( -25.39)
>DroSim_CAF1 69882 105 - 1
UAUCUCUUAAUUGUUCACGCAAUUAAUGCUUACGUACGAAGUGCAUGCGUAAACCGAACUGAAUUUGCAAAAUAUUUUGUUCACCUAUUUGCACUUUCAUUUCAU
......((((((((....))))))))...(((((((.(.....).)))))))...(((.((((..((((((................))))))..)))).))).. ( -19.99)
>consensus
UAUCUCUUAAUUGUUCACGCAAUUAAUGCUUACGUACGAAGUGCAUGCGUAAACCGAACUGAAUUUGCAAAAUAUUUUGUUCACCUAUUUGCACUUUCAUUUCAU
......((((((((....))))))))...(((((((.(.....).)))))))...(((.((((..((((((................))))))..)))).))).. (-19.45 = -19.12 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:24 2006