Locus 2063

Sequence ID 3R_DroMel_CAF1
Location 5,870,831 – 5,870,947
Length 116
Max. P 0.640545
window3372

overview

Window 2

Location 5,870,831 – 5,870,947
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.80
Mean single sequence MFE -27.25
Consensus MFE -14.76
Energy contribution -16.23
Covariance contribution 1.48
Combinations/Pair 1.41
Mean z-score -1.79
Structure conservation index 0.54
SVM decision value 0.22
SVM RNA-class probability 0.640545
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5870831 116 + 27905053
UAAGGUAUUAACCCACAAAUCGAUCCUGCGAGGUUACAUAAACGUCUUUCAAUCGUCCGUCCAAGCUGGAGUCUUUCAUAUUGAGCUUGUCCACGAACUUGGGAUCCACUGUAA----UG
...(((....))).(((....((((((..((.(((.....))).))......((((..(..((((((.((..........)).))))))..)))))....))))))...)))..----.. ( -25.00)
>DroVir_CAF1 1728 113 + 1
UUG---UUUAACCCACAAAUUGAUCCUGCGAUGUUACAUAAACAUCUUUUAGUCGUGUGUCCAAGCCAGCGUCCUUUGUGUUGAGUUUGUCCACAAAUUUGGGAUCCACUACAA----AU
...---...............((((((..((((((.....)))))).........((((..((((((((((.......))))).)))))..)))).....))))))........----.. ( -27.60)
>DroGri_CAF1 2830 113 + 1
UAA---UUUAACCCACAAAUUGAUCCUUUGAUGUUACAUAAACAUCUUUUAGUCGUGUGUCCAAGCUGGCAUCCUUUCUGUUCAGCUUGUCCACAAAUGUGGGAUCCACUAUAA----AU
...---.....((((((....(((.....((((((.....)))))).....))).((((..((((((((((.......)).))))))))..))))..))))))...........----.. ( -34.50)
>DroMoj_CAF1 1726 113 + 1
UCG---UUUAACCCACAAAUUGAUCCUUUGAUGUUACAUAAACAUCUUUUAGUCGUGUAUCCAAGCUAGCGUCCUUUGUGUUUAGUUUGUUCACGAAGUCGGGAUCCACUAAAA----UU
...---...............((((((..((((((.....))))))......(((((....((((((((((.......)).))))))))..)))))....))))))........----.. ( -24.20)
>DroAna_CAF1 1641 113 + 1
UUCU---GUAACCCACAAAUCGAUCCUGCGAGGUUACAUAAACAUCUUUCAAUCGGCUGUCCAAUGUGGCAUCCUUGGCAUUUAGUUUAUCUACAAACUUCGGGUCAACUGUAA----UA
...(---(((((((.((.........)).).)))))))...(((..........((.((((......)))).))(((((....(((((......)))))....))))).)))..----.. ( -20.80)
>DroPer_CAF1 28305 114 + 1
------UUUAACCCACAAAACGAUCCUGUGACGUUACAUAAACGUCUUUUAGUCGCGUGUCCAAAGUGGUGUCCUUUAGGUUGAGUUUGUCCACGAACUUGGGAUCCACUGGAAGCAAUA
------...............(((.....((((((.....)))))).....)))((...((((..((((.(((((.......(((((((....)))))))))))))))))))).)).... ( -31.41)
>consensus
UAA___UUUAACCCACAAAUCGAUCCUGCGAUGUUACAUAAACAUCUUUUAGUCGUGUGUCCAAGCUGGCGUCCUUUGUGUUGAGUUUGUCCACAAACUUGGGAUCCACUAUAA____UU
.....................((((((..((((((.....)))))).........((((..(((((((((((.....))))).))))))..)))).....)))))).............. (-14.76 = -16.23 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:25 2006