Locus 4396

Sequence ID 3R_DroMel_CAF1
Location 11,628,075 – 11,628,190
Length 115
Max. P 0.794053
window7181

overview

Window 1

Location 11,628,075 – 11,628,190
Length 115
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 89.74
Mean single sequence MFE -36.96
Consensus MFE -30.20
Energy contribution -30.88
Covariance contribution 0.68
Combinations/Pair 1.17
Mean z-score -1.61
Structure conservation index 0.82
SVM decision value 0.60
SVM RNA-class probability 0.794053
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11628075 115 + 27905053
UUUUCUGCUGGCCUGGAGCUGUGUGUUUCUGGGAAGCACGGGUUCUCUAAAUCGGAUUGGGAAUUCUGAUAUAGGCUUUAAAUCCUUGGAGGAGCUAGUCUUGAUUAGAAAGACU
......((.(((((((((((.((((((((...))))))))))))).....((((((........)))))).)))))).....(((.....))))).((((((.......)))))) ( -33.70)
>DroSec_CAF1 9291 115 + 1
UUUUCUGCUGGCCUGGAGCUCUGGGUUUCUGGGAAGCACGAGCUCUCUGAAUCGGAUUGGGAAGUCUGAUGUGGGCUUAAAAUCCUUGGAGGAGCUGGUCUUGAUUAGGAAGACU
(((((((((..((.(((((.....))))).))..)))((.(((((((..(...(((((...((((((.....))))))..))))))..)).))))).))........)))))).. ( -38.70)
>DroSim_CAF1 6572 115 + 1
UUUUCUGCUGGCCUGGAGCUCUGUGUUUCUGGGAAGCACAGGCUCUCUGCAUCGGAUUGGGAAGUCUGAUGUGGGCUUAAAAUCCUUGGAGGAGCUGGUCUUGAUUAGGAAGACU
((((((.(.((((.(((((.(((((((((...))))))))))))))(..(((((((((....)))))))))..)((((....((....)).)))).))))..)....)))))).. ( -46.60)
>DroEre_CAF1 6713 115 + 1
CUUUCUGCUUGCCUGGAGCUCUGUAUUUCUGGGAAGCACUUACUCUCUAAAUCGGAAUAGGAAGUCUGAUAUAGGCUUAAAAUCCCUGGAGGAGCUAGUCUUGAUUAGAAAGACU
((((((((((.((..(((........)))..))))))(((..(((((((....(((.....(((((((...)))))))....))).)))).)))..))).......))))))... ( -31.00)
>DroYak_CAF1 9319 115 + 1
GUUUCUGCUCGCCUGGAGCUCUGUAUUUCUGGGAAGCACUUGCUCUCUAAAUCGGAUUGGGAAGUCUGAUAUAGGCCUAAAAUCCUUGGAGGAGCUGGUCUUGAUUAGGCGGACU
......(..(((((((((((((....(((.(((((((....))).((((.((((((((....)))))))).)))).......)))).)))))))))........)))))))..). ( -34.80)
>consensus
UUUUCUGCUGGCCUGGAGCUCUGUGUUUCUGGGAAGCACGGGCUCUCUAAAUCGGAUUGGGAAGUCUGAUAUAGGCUUAAAAUCCUUGGAGGAGCUGGUCUUGAUUAGGAAGACU
.....((((..((..(((........)))..)).))))..((((((((((...(((((...((((((.....))))))..)))))))))).)))))((((((.......)))))) (-30.20 = -30.88 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:05 2006