Locus 4166

Sequence ID 3L_DroMel_CAF1
Location 12,164,711 – 12,164,819
Length 108
Max. P 0.557912
window6465

overview

Window 5

Location 12,164,711 – 12,164,819
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.59
Mean single sequence MFE -33.82
Consensus MFE -11.12
Energy contribution -12.07
Covariance contribution 0.95
Combinations/Pair 1.35
Mean z-score -2.17
Structure conservation index 0.33
SVM decision value 0.05
SVM RNA-class probability 0.557912
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12164711 108 + 23771897
CUGACUUUGCUGUGGAUAGCAGCUUUAGAAUCUGAA------------GCUGAUCCCUUGAUUGUUGAGAUAACAAAUGGAAAAAUCCGUGGCAAAGAUAAUGGGUUGUACUACAGCUAC
....((((((..(((((..(((((((((...)))))------------)))).(((.(((.((((....)))))))..)))...)))))..))))))......(((((.....))))).. ( -35.90)
>DroPse_CAF1 43491 106 + 1
UUGU-----UUUUGGAUUAGUUCGUCCGCGUCUGAU---------CCAGCUGAUCCGCUGCUAGUGGAUCUCCCCAAUGGCAAGCUACGCGGACGCGAUAACGGCAACUAUUAUAGCUAC
....-----...((((((((..((....)).)))))---------)))((((....(((((((.(((......))).)))).)))..(((....)))....))))............... ( -32.80)
>DroSec_CAF1 41792 108 + 1
CUGACUUUGCUGUGGAUCGCAGCCGCAGAAUCUGAA------------GCAGAUCCUCUGAUUGUUGAGAUUACAAAUGGAAAAAUCCGUGGCAAAGAUAAUGGGCUGUACUACAGCUAC
........(((((((...((((((.((..((((...------------((.((((.((........))))))....(((((....))))).))..))))..)))))))).)))))))... ( -34.50)
>DroSim_CAF1 42322 108 + 1
CUGACUUUGCUGUGGAUAGCAGCCGCAGAAUCUGAA------------GCAGAUCCUCUGAUUGUUGAGAUUACAAAUGGAAAAAUCCGUGGCAAAGAUAAUGGGUUAUACUAUAGCUAC
....((((((..(((((.....((((((((((((..------------.)))))..)))).((((.......)))).)))....)))))..))))))......((((((...)))))).. ( -29.00)
>DroEre_CAF1 38442 120 + 1
UUGACUUUGCUUUGGAUAGCAGCCUCAGGAUCUGAAGUUGUCCUACAAGCGGAUCCAUUGGUUGUUGAGAUCCCAAAUGGAAAAAUUCAGGGCAGAGAUAAUGGCCAGUACUACAGCUAC
....((((((((((((((((((((...(((((((...(((.....))).)))))))...)))))))....(((.....)))...)))))))))))))....((((..........)))). ( -39.40)
>DroYak_CAF1 41653 105 + 1
UUGACUUUGCUGUGGAUAGCAGCCUCAGGAGCUGAA---------------GAUCCAUUGGUUGUUGAGAUCCCCAAUGGAAAACUUCGUGGCAAAGAUAAUGGCCAGUACUACAGCUAC
........(((((((((..(((((....).))))..---------------.))))((((((..(((......(((.((((....)))))))......)))..))))))...)))))... ( -31.30)
>consensus
CUGACUUUGCUGUGGAUAGCAGCCUCAGAAUCUGAA____________GCAGAUCCACUGAUUGUUGAGAUCACAAAUGGAAAAAUCCGUGGCAAAGAUAAUGGCCAGUACUACAGCUAC
....((((((..(((((.....((...........................((((....)))).(((......)))..))....)))))..))))))....................... (-11.12 = -12.07 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:54 2006