Locus 1943

Sequence ID 3L_DroMel_CAF1
Location 5,395,933 – 5,396,043
Length 110
Max. P 0.746099
window3035

overview

Window 5

Location 5,395,933 – 5,396,043
Length 110
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 93.83
Mean single sequence MFE -27.00
Consensus MFE -24.94
Energy contribution -25.00
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.56
Structure conservation index 0.92
SVM decision value 0.46
SVM RNA-class probability 0.746099
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5395933 110 + 23771897
AAACGCAUUAUUUAUGACUUGUACGCUUUCUGUGUCAUUUUAUAAACAUUUUCCAAACA-------UGUUCGGCGACCUCGGAAAAGUUCUCCUCCACUUCGGAGGCUGCAGCAGCA
....((....(((((((..((.((((.....))))))..))))))).............-------((((((((((.((......)).))..((((.....)))))))).)))))). ( -24.70)
>DroSec_CAF1 44797 110 + 1
AAACGCAUUAUUUAUGACUUGUACGCUUUCUGCGUCAUUCUAUAAACAUUUUCCAAACA-------UGUUCGGCGACCUCGGAAAAGUUCGCCUCCACUUCGGAGGCAGCAGCAGCA
....((....((((((...((.((((.....))))))...))))))..((((((.....-------((.....)).....))))))(((.((((((.....))))))))).)).... ( -27.70)
>DroSim_CAF1 44608 110 + 1
AAACGCAUUAUUUAUGACUUGUACGCUUUCUGCGUCAUUUUAUAAACAUUUUCCAAACA-------UGUUCGGCGACCUCGGAAAAGUUCUCCUCCACUUCGGAGGCUGCAGCAGCA
....((....(((((((..((.((((.....))))))..))))))).............-------((((((((((.((......)).))..((((.....)))))))).)))))). ( -26.60)
>DroYak_CAF1 44586 117 + 1
AAACGCAUUAUUUAUGACUUGUACGCUUGCUGCGUCAUUUUAUAAACAUUUUCCAAACAUUCUCCAUGUUCUGCGACCUCGGGAAAGUUCUCCUCCACUUCGGAGGCUGCAGCAGCA
........................(((.(((((..............(((((((.(((((.....)))))...((....)))))))))...(((((.....)))))..)))))))). ( -29.00)
>consensus
AAACGCAUUAUUUAUGACUUGUACGCUUUCUGCGUCAUUUUAUAAACAUUUUCCAAACA_______UGUUCGGCGACCUCGGAAAAGUUCUCCUCCACUUCGGAGGCUGCAGCAGCA
....((....(((((((..((.((((.....))))))..)))))))..((((((.(((((.....)))))....(....)))))))((...(((((.....)))))..)).)).... (-24.94 = -25.00 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:38 2006