Locus 115

Sequence ID 3R_DroMel_CAF1
Location 666,895 – 667,011
Length 116
Max. P 0.658504
window188

overview

Window 8

Location 666,895 – 667,011
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 67.68
Mean single sequence MFE -25.40
Consensus MFE -11.12
Energy contribution -12.49
Covariance contribution 1.38
Combinations/Pair 1.20
Mean z-score -1.95
Structure conservation index 0.44
SVM decision value 0.26
SVM RNA-class probability 0.658504
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 666895 116 + 27905053
AGUGAGAAAGUUAACGUUGUUAACUUCACUAAUAUUAGAUACCCUUGACUUUACACAAGACUUUGUAACUAGUGGGAGUUCGAGAGAGCUCGGUUUAA-UGUGGUUAA---AGAGACAAA
(((((...(((((((...)))))))))))).(((((((((.((((.....(((((........)))))..)).))((((((....)))))).))))))-))).(((..---...)))... ( -28.00)
>DroSec_CAF1 86155 98 + 1
AGUCAGAAAGUUAAC---------------------AGAUACCCUUGACUUUCCACAUGAGUUUAUAACUUGUGGGAAUUCGAGGGAGCUUAGUUUAA-UGCGCUUAAAUAAGAGUUAAA
..........(((((---------------------.....(((((((.((((((((..(((.....))))))))))).)))))))..((((.(((((-.....))))))))).))))). ( -27.00)
>DroSim_CAF1 83730 98 + 1
AGUGAGAAAGUUAAA---------------------AGAUACCCUUGACUUUCCACAUAAGUUUGUAACUUGUGGGAAUUCGAGGGAGCUUAGUUUAA-UGCGGUUAAAUGAGAGUUAAA
...............---------------------.....(((((((..((((.(((((((.....))))))))))).)))))))(((((.((((((-(...)))))))..)))))... ( -28.30)
>DroYak_CAF1 93775 113 + 1
AAUGAGGAAGUAA-AAAAAUUAGCUCCACUAAUAUCAGAUACCUGUUACUACCCACAUGAUUUUGUAAUUUGUGAGAGUUCGAGUGAGCUCGCUUUGAAAAUUGUU------GAGAAAAA
.....((.(((((-....(((((.....)))))..(((....)))))))).))((((.((((....)))))))).((((((....))))))...............------........ ( -18.30)
>consensus
AGUGAGAAAGUUAAA_____________________AGAUACCCUUGACUUUCCACAUGAGUUUGUAACUUGUGGGAAUUCGAGGGAGCUCAGUUUAA_UGCGGUUAA___AGAGAUAAA
.........................................(((((((.((((((((.............)))))))).))))))).................................. (-11.12 = -12.49 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:34 2006