Locus 5454

Sequence ID 2R_DroMel_CAF1
Location 17,555,016 – 17,555,108
Length 92
Max. P 0.514060
window8708

overview

Window 8

Location 17,555,016 – 17,555,108
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 82.88
Mean single sequence MFE -18.32
Consensus MFE -12.75
Energy contribution -12.50
Covariance contribution -0.25
Combinations/Pair 1.24
Mean z-score -1.53
Structure conservation index 0.70
SVM decision value -0.04
SVM RNA-class probability 0.514060
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17555016 92 - 20766785
UUUCUCCCACAGUAGCACUGCAGCAAUCGGUUCGGAAAGCUGCAAGGUAAACCAAAGAGAAAAUCAUUAAUAAAGCAGCUUAAAAUUGCAUU
((((((............((((((..((......))..)))))).((....))...))))))............((((.......))))... ( -19.20)
>DroPse_CAF1 74247 85 - 1
CUUAUCCCACUGUG-------AGCAGUCGCUUGGGAAAGCUGUAAGGUAAACCAAAGAGAAAAUCAUUAAUAAAGCAGCUUAACAUUGCAUU
....(((((..(((-------(....)))).)))))(((((((..((....))...((.....)).........)))))))........... ( -21.30)
>DroEre_CAF1 69677 92 - 1
UUUCACCCACAGUAACACAGCUGCAAUCGGUUCUGAAAGCUGUAAGGUAAACCAAAGAGAAAAUCAUUAAUAAAGCAGCUUAAAAUUGCAUU
...........((((((.(((((....))))).)).(((((((..((....))...((.....)).........)))))))....))))... ( -16.30)
>DroYak_CAF1 64763 92 - 1
UUUCUCCCACAGUAGCACAGCUGCAAUCGUUUCUGAAAGCUGGAAGGUAAACCAAAGGAAAAAUCAUUAAUAAAGCAGCUUAAAAUUGCAUU
..............((((((..((....))..))).((((((...((....))....((....))..........)))))).....)))... ( -14.40)
>DroAna_CAF1 63713 86 - 1
UUCCAGC-CCACUGCCACUGCGGCAAUCG-----GAGAGCUGAAAGGUAAACCAGAGAGAAAAUCAUUAAUAAAGCAGCUUAAAAUUGCAUU
.....((-((..((((.....))))...)-----).((((((...((....))...((.....))..........))))))......))... ( -17.40)
>DroPer_CAF1 79233 85 - 1
CUUAUCCCACUGUG-------AGCAGUCGCUUGGGAAAGCUGUAAGGUAAACCAAAGAGAAAAUCAUUAAUAAAGCAGCUUAACAUUGCAUU
....(((((..(((-------(....)))).)))))(((((((..((....))...((.....)).........)))))))........... ( -21.30)
>consensus
UUUCUCCCACAGUA_CAC_GCAGCAAUCGCUUCGGAAAGCUGUAAGGUAAACCAAAGAGAAAAUCAUUAAUAAAGCAGCUUAAAAUUGCAUU
......................((((((......))(((((((..((....))...((.....)).........)))))))....))))... (-12.75 = -12.50 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:21 2006