Locus 1180

Sequence ID X_DroMel_CAF1
Location 3,517,408 – 3,517,501
Length 93
Max. P 0.632895
window1889

overview

Window 9

Location 3,517,408 – 3,517,501
Length 93
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 75.11
Mean single sequence MFE -21.26
Consensus MFE -2.78
Energy contribution -2.62
Covariance contribution -0.16
Combinations/Pair 1.17
Mean z-score -1.50
Structure conservation index 0.13
SVM decision value 0.20
SVM RNA-class probability 0.632895
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3517408 93 - 22224390
CAACGGACACAGUGU-UG---GUAUUUCUCGUGCUGGUAUUUAAAUACUAGCGACAAUGAGAGGUAAAAUACCACAUGUAAUGGUCACACUUUCGCC
.....(((...((((-.(---(((((((((((((((((((....))))))))....)))))).....))))))))))......)))........... ( -25.20)
>DroSec_CAF1 25686 94 - 1
CAACGCACUCGAUGUUUG---GUAUUUCUCGUGCCGGUAUUUAAAUACUAGCGACAAUGCGUGGGAAAAUACCACAUGUAAUGGUCACACUUUCGCC
....((...........(---((((.....)))))(((((....))))).))(((..((((((((......)).))))))...)))........... ( -20.60)
>DroSim_CAF1 26135 94 - 1
CAACGCACUCGAUGUUUG---GUAUUUCUCGUGCCGGUAUUUAAAUACUAGCGACAAUGCGUGGGAAAAUACCACAUGUAAUGGUCACACUUUCGCC
....((...........(---((((.....)))))(((((....))))).))(((..((((((((......)).))))))...)))........... ( -20.60)
>DroEre_CAF1 29648 80 - 1
CAACGCACACA-UUU-UGUGUGUAUUU---------------UAAUACUAGUGAGAUUGUGCUGGAAAAUACCACUUUAAGUGGGCACACUUUCGCC
....((((((.-...-.))))))....---------------........((((((.((((((....)...((((.....))))))))).)))))). ( -24.90)
>DroYak_CAF1 24592 80 - 1
CAACGCACACA-UGU-UG---GCAUUUC------------AUAAAUACUAGUAACAGUGUGAAAGAAAAAACCAUAUUAAAUGGGCACACUUUUGCC
(((((......-)))-))---.......------------..........((((.((((((..........((((.....)))).)))))).)))). ( -15.00)
>consensus
CAACGCACACA_UGU_UG___GUAUUUCUCGUGC_GGUAUUUAAAUACUAGCGACAAUGCGAGGGAAAAUACCACAUGUAAUGGUCACACUUUCGCC
..................................................((((.(.((.(.........((((.......))))).)).).)))). ( -2.78 =  -2.62 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:09 2006