Locus 343

Sequence ID X_DroMel_CAF1
Location 1,063,740 – 1,063,856
Length 116
Max. P 0.512837
window522

overview

Window 2

Location 1,063,740 – 1,063,856
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.67
Mean single sequence MFE -38.02
Consensus MFE -28.08
Energy contribution -28.20
Covariance contribution 0.12
Combinations/Pair 1.26
Mean z-score -1.52
Structure conservation index 0.74
SVM decision value -0.04
SVM RNA-class probability 0.512837
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1063740 116 + 22224390
GGCGUCCUUUGAUCCUGCCAACAGCCAGUCCUUCACUACCUUCUCUGACGGCGCUGGCUCAACUGAGUCCUGGCUACACGGGCCCGCAGACCUUUCCUCCAGUUC-CA---CAGGAUCAA
........(((((((((..((((((((((((.(((..........))).)).)))))))...(((.((((((....)).))))...)))............))).-..---))))))))) ( -35.70)
>DroSec_CAF1 12746 116 + 1
GGCGUCCUUUGAUCCUGCCCACAGCCAGUCCUUCACUGCCUUCUCUGACGGCGCUGGCUCAACUGAGUCCUGGCUACACGGGUCCGCAGACCUUUCCGCCAGUUC-CA---CAGGAUCAA
........(((((((((.....(((((((((.(((..(....)..))).)).)))))))....((.(..(((((.....(((((....)))))....)))))..)-))---))))))))) ( -41.30)
>DroSim_CAF1 13692 116 + 1
GGCGUCCUUUGAUCCUGCCCACAGCCAGUCCUUCACUGCCUUCUCUGACGGCGCUGGCUCAACUGAGUCCUGGCUACACGGGCCCGCAGACCUUUCCGCCAGUUC-CA---CAGGAUCAA
........((((((((((((..((((((.........(((.((...)).)))...(((((....)))))))))))....))))..((.((....)).))......-..---.)))))))) ( -36.90)
>DroYak_CAF1 15148 116 + 1
GGCGACCUUUGAUCCUGCCCACAGCUAGCCCUU---UGCCUUCCUUGGCGGCGCUGGCUCAACUGAGUCCUGGCUACACGGGUCCGCAGACCUUUCCUCCAGAUG-CACAACAGGACCAA
........(((.(((((.....(((((((((..---.(((......))))).)))))))....((.((.((((......(((((....))))).....))))..)-).)).))))).))) ( -35.40)
>DroAna_CAF1 16699 110 + 1
GGCGUCCUCUGAUCCUGCCCAGAGUAGCUCCCACGC------CAUUGGCGGGCGUUUCUCAACUGAGUCCGGGCUAUACGGGUCCUCAGACCUUUCCUCCAGUGCUCG---CAGGAUCA-
..........((((((((...(((.(((.(((..((------(...)))))).))).)))....(((..(.((......(((((....))))).....)).)..))))---))))))).- ( -40.80)
>consensus
GGCGUCCUUUGAUCCUGCCCACAGCCAGUCCUUCACUGCCUUCUCUGACGGCGCUGGCUCAACUGAGUCCUGGCUACACGGGUCCGCAGACCUUUCCUCCAGUUC_CA___CAGGAUCAA
.........((((((((.....(((((((((.(((..........))).)).)))))))...(((...((((......))))....)))......................)))))))). (-28.08 = -28.20 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:13 2006