Locus 3629

Sequence ID 2R_DroMel_CAF1
Location 12,026,943 – 12,027,046
Length 103
Max. P 0.716607
window5905

overview

Window 5

Location 12,026,943 – 12,027,046
Length 103
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 73.68
Mean single sequence MFE -15.81
Consensus MFE -8.28
Energy contribution -9.08
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.52
SVM decision value 0.39
SVM RNA-class probability 0.716607
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12026943 103 - 20766785
AAAUUAAGCACUUUAAAGUGUGGCCACACCUACACUUUGACCCGCCCC------CACACCGCUCGACUUAACGAAUGCACAAAGAGAAAAACUAA-----AUCAAAAUAUAUUA
.......((...(((((((((((......)))))))))))...))...------......(((((......)))..)).................-----.............. ( -15.40)
>DroSec_CAF1 28209 99 - 1
AAAUUAAGCACUUUAAAGUGUGGCCACACCUACACUUUGACCCC----------CACAACUCUCUACUCAACGAAUGCACAAAGAGAAAAACUUA-----AUCGAAAUGUAUUA
..((((((....(((((((((((......)))))))))))....----------......(((((.................)))))....))))-----))............ ( -16.63)
>DroSim_CAF1 28491 108 - 1
AAAUUAAGCACUUUAAAGUGUGGCCACACCUACACUUUGACCCCAACC-CACACCACAACUCUCUACUCAACGAAUGCACAAAGAGAAAAACUUA-----AUCGAAAUAUAUUA
..((((((....(((((((((((......)))))))))))........-...........(((((.................)))))....))))-----))............ ( -16.63)
>DroYak_CAF1 28078 109 - 1
AAAUUAAGCACUUUAAAGUGUGGCCACACCUACACUUUGACCCGCCCCUCUCUACACACCUCUCUACACAGCCAAUGCACAAAAAGAAAAACUUA-----GUUAAAAUAUUGAG
.(((((((....(((((((((((......)))))))))))..............................((....)).............))))-----)))........... ( -15.80)
>DroAna_CAF1 23923 101 - 1
AAAUUAAGCGCUUUAAAGUGUUGCCACACCU-CUCUGUGAAUGC-ACU-CGCAAAAUAACUUACUA-------ACAGUACAAAAAGGA---CGUCGACGAAAGGACAUGUAUUA
.......(((......(((((...((((...-...))))...))-)))-)))..............-------..((((((.....(.---...)..(....)....)))))). ( -14.60)
>consensus
AAAUUAAGCACUUUAAAGUGUGGCCACACCUACACUUUGACCCC_ACC_C_C__CACAACUCUCUACUCAACGAAUGCACAAAGAGAAAAACUUA_____AUCGAAAUAUAUUA
............(((((((((((......))))))))))).......................................................................... ( -8.28 =  -9.08 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:15 2006