Locus 3115

Sequence ID dm3.chr2R
Location 2,638,629 – 2,638,749
Length 120
Max. P 0.986148
window4278

overview

Window 8

Location 2,638,629 – 2,638,749
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 70.03
Shannon entropy 0.38818
G+C content 0.31768
Mean single sequence MFE -26.77
Consensus MFE -12.31
Energy contribution -13.10
Covariance contribution 0.79
Combinations/Pair 1.33
Mean z-score -3.18
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.23
SVM RNA-class probability 0.986148
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 2638629 120 + 21146708
CUAAUAUAGUGUAAUAUAUUACAUGCAGGGGAAAUAUGCAAUUGGAAUGCGUAGUUUUUUGAGAUAGAACAGAAAGCAUAUGAUUUCUUCAUAGAAAACAUUAUUCCUCUGUGUAGUAAU
.................((((((((((((((((.((((((.......))))))((((((((........))))))))..(((.(((((....))))).)))..))))))))))).))))) ( -31.40, z-score =  -3.34, R)
>droSim1.chr2R 1452867 96 + 19596830
-----------------------UGCAGGGGAAAUAUGCAAUUGGAAUACGUAGUUUUUGGAGAUGGAAAAGGAAGCAUAUGAUU-CUUCAUAGAAAAUAUUAUUCCCCUGUGUAGUAAU
-----------------------.(((((((((((((((..(..(((........)))..)...(....).....))))))..((-((....)))).......)))))))))........ ( -23.40, z-score =  -2.20, R)
>droYak2.chr2L 15375201 97 + 22324452
-----------------------UAUACCUAAUGUCUGCAAUUGGAAUGCGUUAUUUAUUGAGAUCGUAAAAACAGUAUAUGAUUUCUUAAUGGAAAACAGUAUUCCCCUGUGUAGUAAU
-----------------------............(((((...((((((((((.(((((((((((((((.........)))))..)))))))))).))).)))))))....))))).... ( -25.50, z-score =  -4.00, R)
>consensus
_______________________UGCAGGGGAAAUAUGCAAUUGGAAUGCGUAGUUUUUUGAGAUAGAAAAGAAAGCAUAUGAUUUCUUCAUAGAAAACAUUAUUCCCCUGUGUAGUAAU
........................((((((((...(((...........(((((((((((..........))))))).)))).(((((....))))).)))...))))))))........ (-12.31 = -13.10 +   0.79)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:03:58 2011