Locus 5212

Sequence ID 2R_DroMel_CAF1
Location 16,963,124 – 16,963,235
Length 111
Max. P 0.948157
window8327

overview

Window 7

Location 16,963,124 – 16,963,235
Length 111
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 75.58
Mean single sequence MFE -24.16
Consensus MFE -16.12
Energy contribution -16.08
Covariance contribution -0.04
Combinations/Pair 1.14
Mean z-score -1.91
Structure conservation index 0.67
SVM decision value 1.38
SVM RNA-class probability 0.948157
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16963124 111 - 20766785
AUAU----UGAUUUUUAGACUGACAUCAGUCUAGAAGAUGUAUUCAUUUGACCAAAUGCCAACUUCCUGAUUU-UUCUCUCUGUGCAUAACCCUGUAACUCUGCUUCGGCACAGGU
....----...(((((((((((....)))))))))))((((((.(((((....)))))..........((...-.)).....))))))...(((((......((....))))))). ( -25.10)
>DroSec_CAF1 60004 112 - 1
AUAU----UAAUUUUUAGACUGCCUUCAGUCUGGGAGAUGUAUUAAUUUGACUAAAUGCAAACUUCCUGAUUUUUUCUCUCUGUGCAUAACCCUGUAACUCUGCUUCGGCACAGGU
....----........((((((....))))))(((..((((((......((..((((.((.......))))))..)).....))))))..))).....((.(((....))).)).. ( -24.50)
>DroSim_CAF1 63951 101 - 1
AUAU----GUAUUUUUAGACUUAGUUCAGUCUGGGAGAAGUAUUAAUUU-----------AACUUCCUGAUUUUUUCUCUCUGUGCAUAACCCUGUAACUCUGCUUCGGCACAGGU
.(((----((((....(((((......)))))((((((((.((((....-----------.......))))..)))))))).)))))))..(((((......((....))))))). ( -25.20)
>DroEre_CAF1 61475 100 - 1
AUAUACAUUGAUUUUUAGACUUCCUCCAGUCUAGGUGGA---CACCUAUGU----------UUUUCCUGAUUU-UUCU--CUGUGUACAACCCUGUAACUCUGCUUCGGCACAGGU
.((((((..((....((((((......))))))((.(((---((....)))----------))..))......-.)).--.))))))....(((((......((....))))))). ( -22.40)
>DroYak_CAF1 63544 102 - 1
AUAUACACAGGUUUUUAGACUUGAUCCAGUGUAGGUGGA---CACUUUUGU----------UUUUCCUGAUUU-UUCUCGCUGUGUACAACCCUGUAAUUCUGCUUCGGCACAGGU
...((((((((((....))))))...(((((((((.(((---((....)))----------))..))))....-....)))))))))....(((((......((....))))))). ( -23.60)
>consensus
AUAU____UGAUUUUUAGACUUACUUCAGUCUAGGAGAAGUAUUCAUUUGA_________AACUUCCUGAUUU_UUCUCUCUGUGCAUAACCCUGUAACUCUGCUUCGGCACAGGU
...........((((((((((......))))))))))............................((((..............((((......))))....(((....))))))). (-16.12 = -16.08 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:15 2006