Locus 4091

Sequence ID 3R_DroMel_CAF1
Location 11,166,310 – 11,166,424
Length 114
Max. P 0.789843
window6552

overview

Window 2

Location 11,166,310 – 11,166,424
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.90
Mean single sequence MFE -30.64
Consensus MFE -14.94
Energy contribution -15.18
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -2.68
Structure conservation index 0.49
SVM decision value 0.58
SVM RNA-class probability 0.789843
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11166310 114 + 27905053
UAGGGCUC--AAGUUUUGUUACG----UACUUAAUAGCGAGCGUUACGUUAUCAGCCCAAAUAAUGAAAAAGUUCGAUAAAUAAUCGAAAGUUAACAGAAUGUUAGCGGCUUUUACAAUU
..(((((.--..((..((((.((----(........)))))))..))......)))))......((.(((((((((((.....)))))..((((((.....)))))).)))))).))... ( -28.40)
>DroSec_CAF1 7089 120 + 1
UAAGUAUCAAAAGUUUCGCUACGUAUGUACGUAACAGCGUGCGUUACGUUAUAAUCCGAAAUGUUGAAAAAGUUCGAUUUGUAAUCGAAAGUUAACAGAAUGUUAGCGGCUUUUACAAUU
............((((((..((((((((((((....))))))).))))).......))))))((((.(((((((((((.....)))))..((((((.....)))))).)))))).)))). ( -31.10)
>DroSim_CAF1 6874 120 + 1
UAAGGCUCUAAAGUUUCGCUACGUAUGUACUUAACAGCCUGCGUUACGUUAUCAGCCGAAAUGUUGAAAAAGUUCGAUAAGUAAUCGAAAGUUAACAGAAUGUUAGCGGCUUUUACAAUU
...((((.(((.((..(((...((.(((.....)))))..)))..)).)))..)))).....((((.(((((((((((.....)))))..((((((.....)))))).)))))).)))). ( -28.10)
>DroEre_CAF1 7234 115 + 1
UAAGGAUUGGAAGUUGCGUAGCG----UACGUAACAGCGAGCGUAACGUUAACACAUCAAACAAUGAA-GACUUCGAUAAAUAAUCGAAUGUUAACAGAAUGUUAGCGGCUUUUACAAUU
....(((((((((((((((.(((----(.(((....))).)))).))(((((((..(((.....))).-...((((((.....))))))))))))).........))))))))..))))) ( -31.40)
>DroYak_CAF1 7187 115 + 1
UAAGGCUCCAAAGUUUCGUUACG----UACGUAGCAGCGUGCGUAACGUUAACACAUCAAACAUUGAA-GACUUCGAUAAAUAAUCGAAUGUUAACAGAAUGUUAGCGGCUUUUACAAUU
.((((((..........((((((----(((((....)))))))))))(((((((..(((.....))).-(((((((((.....)))))).))).......)))))))))))))....... ( -34.20)
>consensus
UAAGGCUC_AAAGUUUCGUUACG____UACGUAACAGCGUGCGUUACGUUAUCACCCCAAAUAUUGAAAAAGUUCGAUAAAUAAUCGAAAGUUAACAGAAUGUUAGCGGCUUUUACAAUU
..............................((((.(((..................................((((((.....)))))).((((((.....)))))).))).)))).... (-14.94 = -15.18 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:54 2006