Locus 734

Sequence ID 3L_DroMel_CAF1
Location 2,216,175 – 2,216,295
Length 120
Max. P 0.500000
window1124

overview

Window 4

Location 2,216,175 – 2,216,295
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.28
Mean single sequence MFE -48.14
Consensus MFE -28.98
Energy contribution -30.04
Covariance contribution 1.06
Combinations/Pair 1.24
Mean z-score -1.88
Structure conservation index 0.60
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2216175 120 + 23771897
GAAGCCGCCGUGGGCGCGAAGCAAUGGCGCAAAGCAGUCCAGAUAGCCAAAGUCCUGGAUGAACCGGAGCUAAUACAGCGUUAUGCUGUGGAUCUAGCCAAGCAUCUGGCCUUCGCGGGA
....((((.((..((((.(.....).))))...))((.((((((.((.......((((.....)))).((((.((((((.....))))))....))))...)))))))).))..)))).. ( -40.60)
>DroVir_CAF1 292194 120 + 1
GAGGCAGCUGUUGGCGCCCGGCAGUGGCGCAAGGCGGUCCAAAUCGCCAAGGUGCUGGACGAGCCAGAGCUGAUACAGCGUCAUGCAUUGGAUCUGUCCAAGCACUUGGCCUUCGCCGGC
..(((.((((((((...))))))))(((....((((((....)))))).(((((((((((((.((((.((((((.....)))).)).)))).)).)))).))))))).)))...)))... ( -55.00)
>DroGri_CAF1 260869 120 + 1
GAGGCAGCUGUGGGCGCCAAGCAGUGGCGCAAAGCUGUGCAGAUUGCCAAGGUGCUGGACGAACCGGAACUGAUACAACGCUAUGCAUUAGAUCUGUCCAAGCAUUUGGCUUUUGCUGGC
...((((((....((((((.....))))))..))))))(((((..((((((.((((((((.....(((.(((((.((......)).))))).))))))).)))))))))).))))).... ( -49.20)
>DroWil_CAF1 344056 120 + 1
GAAGCAGCUGUGGGCGCCAAACAAUGGCGCAAAGCAGUCCAAAUAGCCAAAGUCCUGGAUGAACCGGAGCUAAUUCAACGCUAUGCCCUGGAUUUGUCUAAGCACUUGGCAUUUGCAGGU
...((((((((..((((((.....))))))...))))).......(((((.(((.((((..((((((.((..............)).)))).))..)))).).)))))))...))).... ( -42.84)
>DroMoj_CAF1 279794 120 + 1
GAGGCAGCGGUGGGCGCCAAGCAGUGGCGCAAGGCGGUGCAAAUAGCCAAGGUGCUGGACGAGCCGGAGCUGAUACAGCGCUAUGCCCUGGAUCUGUCGAAGCACUUGGCCUUCGCGGGC
((((((.((.(..((((((.....))))))..).)).))).....((((((.((((.(((((.((((.((((...))))((...)).)))).)).)))..)))))))))).)))...... ( -49.30)
>DroAna_CAF1 261887 120 + 1
GAAGCAGCGGUAGGAGCCAAGCAGUGGCGCAAGGCGGUGCAAAUAGCAAAGGUUCUGGACGAGCCGGAGCUGAUCCAGCGGUAUGCACUGGAUCUUGCCAAGCAUUUGGCCUUUGCCGGA
.......((((((..((((((((.((.(....).)).))).....((((.((((((((.....))))))))(((((((.(.....).))))))))))).......)))))..)))))).. ( -51.90)
>consensus
GAAGCAGCUGUGGGCGCCAAGCAGUGGCGCAAAGCGGUCCAAAUAGCCAAGGUGCUGGACGAACCGGAGCUGAUACAGCGCUAUGCACUGGAUCUGUCCAAGCACUUGGCCUUCGCCGGC
...((.((.((..((((((.....))))))...)).)).......((((((((..(((((((.((((.((..............)).)))).)).))))).)).))))))....)).... (-28.98 = -30.04 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:44 2006