Locus 9969

Sequence ID 3R_DroMel_CAF1
Location 26,688,473 – 26,688,590
Length 117
Max. P 0.962041
window15891

overview

Window 1

Location 26,688,473 – 26,688,590
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.33
Mean single sequence MFE -28.54
Consensus MFE -24.32
Energy contribution -23.84
Covariance contribution -0.48
Combinations/Pair 1.08
Mean z-score -1.82
Structure conservation index 0.85
SVM decision value 1.53
SVM RNA-class probability 0.962041
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26688473 117 + 27905053
CGCCACAACAAAGUGGCAGGCAUAACAGAGUAAUAACAAA-AAAGGUAGCAAGAAACGGUAGGCUAAUUAAGCACUUUGAGCCGCCGCCGCCGCAGACGUGGCCA--ACAUCUAAUCACC
.(((((......))))).(((........((....))...-...((..((......(....)(((.....))).......))..)))))(((((....)))))..--............. ( -30.00)
>DroSec_CAF1 279225 114 + 1
AGCCACAACAAAGUGGCAAGCAUAACAGAGUAAUAACAAA-AAAGGCAGCAAGAAACGGUAGGCUAAUUAAGCACUUUGAGCCGCC---GCCGCAGACGUGGCCA--ACAUCUAAUCACC
.(((((......))))).........(((((.........-...(((.((......(....)(((.....))).......)).)))---(((((....)))))..--)).)))....... ( -27.40)
>DroSim_CAF1 276000 114 + 1
AGCCACAACAAAGUGGCAAGCAUAACAGAGUAAUAACAAA-AAAGGCAGCAAGAAACGGUAGGCUAAUUAAGCACUUUGAGCCGCC---GCCGCAGACGUGGCCA--ACAUCUAAUCACC
.(((((......))))).........(((((.........-...(((.((......(....)(((.....))).......)).)))---(((((....)))))..--)).)))....... ( -27.40)
>DroEre_CAF1 295171 115 + 1
CGCCACAACAAAGUGGUAAGCAUAACAGAGUACCAACAAAAAAAGGUAGCCAGAAACGGUAGGCUAAUUAAGCACUUUGAGCCGCC---GCCGCAGACGUGGCCA--ACAUCUAAUCACC
.(((((..((((((((((..(......)..))))............(((((..........))))).......))))))....((.---...))....)))))..--............. ( -26.60)
>DroYak_CAF1 284178 116 + 1
CGCCACAACAAAGUGGUAAGCAUAACAGAGUAACAACAAA-AAAGGUGGCCAGAAACGGUAGGCUAAUUAAGCACUUUGAGCCGCC---GCCGCAGACGUGGCCAAAACAUCUAAUCACC
.(((((......))))).........(((((.........-...((((((((((..(....)(((.....)))..)))).))))))---(((((....)))))....)).)))....... ( -31.30)
>consensus
CGCCACAACAAAGUGGCAAGCAUAACAGAGUAAUAACAAA_AAAGGUAGCAAGAAACGGUAGGCUAAUUAAGCACUUUGAGCCGCC___GCCGCAGACGUGGCCA__ACAUCUAAUCACC
.(((((......))))).........(((((.............(((.((........)).((((....((....))..)))))))...(((((....)))))....)).)))....... (-24.32 = -23.84 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:46:02 2006