Locus 9058

Sequence ID 3R_DroMel_CAF1
Location 24,212,299 – 24,212,403
Length 104
Max. P 0.641848
window14504

overview

Window 4

Location 24,212,299 – 24,212,403
Length 104
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 92.10
Mean single sequence MFE -15.59
Consensus MFE -12.73
Energy contribution -12.72
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.82
SVM decision value 0.22
SVM RNA-class probability 0.641848
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24212299 104 + 27905053
UGCCACGCCCACCGCACACACA--CAC-ACACACAGCACUCCGGCGUACGCCCAUAAAUAAAACAUUUCACUUUGUUUUGUCGACUGCCUCUUAGCCUAAACAAACA
.((...((.....)).......--...-.......(((.((.(((....))).....((((((((........)))))))).)).)))......))........... ( -14.00)
>DroSec_CAF1 34923 100 + 1
UGCCACGCCCACCGCACACAC-------ACACACAGCACUCCGGCGCACGCCCAUAAAUAAAACAUUUCACUUUGUUUUGUCGACUGCCUCUUAGCCUAAACAAACA
.((...((.....))......-------.......(((.((.(((....))).....((((((((........)))))))).)).)))......))........... ( -14.00)
>DroSim_CAF1 38867 104 + 1
UGCCACGCCCACCGCACACACA--CAC-ACACACAGCACUCCGGCGCACGCCCAUAAAUAAAACAUUUCACUUUGUUUUGUCGACUGCCUCUUAGCCUAAACAAACA
.((...((.....)).......--...-.......(((.((.(((....))).....((((((((........)))))))).)).)))......))........... ( -14.00)
>DroAna_CAF1 33397 105 + 1
CGCCACGCCCACCG-ACACA-ACACGUAGCAUACAGCACUCGGGCAUACGCCCAUAAAUAAAACAUUUCACUUUGUUUUGUCGACUGCCUCUUAGCCUAAACAAACA
.((.(((.......-.....-...))).)).....(((.((((((....))))....((((((((........)))))))).)).)))................... ( -20.36)
>consensus
UGCCACGCCCACCGCACACACA__CAC_ACACACAGCACUCCGGCGCACGCCCAUAAAUAAAACAUUUCACUUUGUUUUGUCGACUGCCUCUUAGCCUAAACAAACA
...................................(((.((.(((....))).....((((((((........)))))))).)).)))................... (-12.73 = -12.72 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:25:42 2006