Locus 162

Sequence ID 2R_DroMel_CAF1
Location 1,424,361 – 1,424,471
Length 110
Max. P 0.854981
window364

overview

Window 4

Location 1,424,361 – 1,424,471
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.70
Mean single sequence MFE -48.48
Consensus MFE -40.92
Energy contribution -41.72
Covariance contribution 0.80
Combinations/Pair 1.18
Mean z-score -1.75
Structure conservation index 0.84
SVM decision value 0.80
SVM RNA-class probability 0.854981
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1424361 110 - 20766785
CCGGACACGUUUCGGUUCAUGC-U-GCCGGGGUGUUCAGCUGACCGGUUGUCCGGU--------AGCUCUGCUCUGUCGGUCAGCUGCGCCAAGUGCCAAAGUUAUGGUGCUAAGGCGUG
..((((((..((((((......-.-))))))))))))((((((((((..(..(((.--------....)))..)..))))))))))(((((.((..(((......)))..))..))))). ( -49.80)
>DroSec_CAF1 42779 110 - 1
CCGGACACGUUUCGGUUCCUGC-U-GCCGGGGUGUCCAGCUGACCGGUUGUCCGGU--------UACGCUGCUCUGUCGGUCAGCUGCGCCAACUGCCAAAGUUAUGGUGCUAAGGCGUG
..((((((..((((((......-.-))))))))))))((((((((((..(..(((.--------....)))..)..))))))))))(((((....((((......)))).....))))). ( -48.50)
>DroSim_CAF1 47835 110 - 1
CCGGACACGUUUCGGUUCCUGC-U-GCCGGGGUGUCCAGCUGACCGGUUGUCCGGU--------UGCGCUGCUCUGUCGGUCAGCUGCGCCAAGUGCCAAAGUUAUGGUGCUAAGGCGUG
..((((((..((((((......-.-))))))))))))((((((((((..(..(((.--------....)))..)..))))))))))(((((.((..(((......)))..))..))))). ( -53.40)
>DroEre_CAF1 40940 109 - 1
CCGGACACGUUUUUGUUCCUGC-U-GCCGGGAUGUCCGGCACACUGGUUGUCCGGUU---------CGCUGCUCUGUCGGUCAGCUGCGCCAAGUGCCAAAGUUAUGGUGCUGAGGCGUG
(((((((((....))).((...-(-(((((.....))))))....))..))))))..---------.((((..(....)..)))).(((((.((..(((......)))..))..))))). ( -44.60)
>DroYak_CAF1 45577 120 - 1
CAGGACACGUUUUUGUUCCUGGGUGUUCGGGGCGUCCGGCUGACUGGUAGUCCGGCUGUCCGUUUGCGUUGCCCUGUCUGUCAGCUGCGCCAAGUGCCAAAGUUAUGGUGCUAAGGCGUG
(((((.(((....))))))))(..(..(((((((..((((((((.....)).))))))..)(....)...))))))..)..)....(((((.((..(((......)))..))..))))). ( -46.10)
>consensus
CCGGACACGUUUCGGUUCCUGC_U_GCCGGGGUGUCCAGCUGACCGGUUGUCCGGU________UGCGCUGCUCUGUCGGUCAGCUGCGCCAAGUGCCAAAGUUAUGGUGCUAAGGCGUG
..((((((..((((((.........))))))))))))((((((((((..(..((((...........))))..)..))))))))))(((((.(((((((......)))))))..))))). (-40.92 = -41.72 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:39 2006