Locus 4869

Sequence ID 3R_DroMel_CAF1
Location 12,816,401 – 12,816,521
Length 120
Max. P 0.573905
window7973

overview

Window 3

Location 12,816,401 – 12,816,521
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.58
Mean single sequence MFE -38.70
Consensus MFE -36.06
Energy contribution -36.06
Covariance contribution -0.00
Combinations/Pair 1.06
Mean z-score -1.09
Structure conservation index 0.93
SVM decision value 0.08
SVM RNA-class probability 0.573905
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12816401 120 + 27905053
CAACUUUUGCAGCUCCUUCCGUUUGGAGCUCACGGCUCGAGAGUUGUCCAAAUGGUUGCAGCACAAGUAAAUGCCAUAAAGGGCCCUCAAGUUAUGCGGAUUAAGCUUCAGGGCCUGCGA
..((((.(((.((.....(((((((((((((.((...)).))))..)))))))))..)).))).))))............(((((((.(((((..........))))).))))))).... ( -41.10)
>DroSec_CAF1 191257 120 + 1
UAACUUUUGCAGCUCCUUCCGCUUGGAGCUUACAGCUCGGGAAUUGUCCAAUUGGUUGCAGCACAGGUAAAUGCCAUAAAGGGCCCUCAAGUUAUGCGGAUUAAGCUUCAGGGCCUGCGA
..((((.(((((((((........))))))..(((((..(((....)))....)))))..))).))))............(((((((.(((((..........))))).))))))).... ( -38.50)
>DroSim_CAF1 193171 120 + 1
UAACUUUUGCAGCUCCUUCCGCUUGGAGCUUACAGCUCGGGAGUUGUCCAAAUGGUUGCAGCACAGGUAAAUGCCAUAAAGGGCCCUCAAGUUAUGCGGAUUAAGCUUCAGGGCCUGCGA
(((((((((((((((((........((((.....))))))))))))..)))).)))))..((...(((....))).....(((((((.(((((..........))))).))))))))).. ( -39.40)
>DroEre_CAF1 199884 120 + 1
CAACUUUUGCAGCUCCUUUCGCUUGGAGCUCACAGCUCGGGAGUUGUCCAAAUGGUUGCAGCACAAGUAAAUGCCAUAAAGGGCCCUCAAGUUAUGCGGGUUAAGCUUCAGGGCCUGCGA
..((((.(((((((((........))))))..(((((..(((....)))....)))))..))).))))............(((((((.(((((..........))))).))))))).... ( -38.70)
>DroYak_CAF1 192460 120 + 1
CAACUUCUGCAGCUCCUUUCGCUUGGAGCUCACAGCUCGGGAGUUGUCCAAGUGGUUGCAGCACAAGUAAAUUCCAUAAAGGGCCCUCAAGUUAUGCGGGUUAAGCUUCAGCGCCUGCGA
.......((((((......((((((((((((.(......)))))..))))))))((((.(((...........((.....))((((.((.....)).))))...))).))))).))))). ( -35.80)
>consensus
CAACUUUUGCAGCUCCUUCCGCUUGGAGCUCACAGCUCGGGAGUUGUCCAAAUGGUUGCAGCACAAGUAAAUGCCAUAAAGGGCCCUCAAGUUAUGCGGAUUAAGCUUCAGGGCCUGCGA
..((((.(((((((((........))))))..(((((..(((....)))....)))))..))).))))............(((((((.(((((..........))))).))))))).... (-36.06 = -36.06 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:48 2006