Locus 9714

Sequence ID 3R_DroMel_CAF1
Location 25,690,142 – 25,690,262
Length 120
Max. P 0.696105
window15515

overview

Window 5

Location 25,690,142 – 25,690,262
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.06
Mean single sequence MFE -37.25
Consensus MFE -25.08
Energy contribution -23.28
Covariance contribution -1.80
Combinations/Pair 1.57
Mean z-score -1.51
Structure conservation index 0.67
SVM decision value 0.34
SVM RNA-class probability 0.696105
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25690142 120 - 27905053
GAAGAAGGUGGCUGGUUAUCUGAACCUCUUGGCCAACUCAAUUGACAAUUUCACACACGGUCUAGCCGUGGCUGGAUCCUUUUUGGUGUCCUUCAGACACGGCAUUCUAGCCACUUUUGC
...((((((((((((((.....)))).....(((........................((((((((....)))))))).......(((((.....)))))))).....)))))))))).. ( -41.00)
>DroVir_CAF1 6899 120 - 1
AAAGAAAGUAGCCGGCUAUCUAAAUCUGCUGGCCAAUUCCAUUGAUAAUUUCACACACGGUCUGGCAGUUGCCGGUUCGUUUCUGGUCUCCUUCAGGCACGGCGUCCUGGCUACGUUCGC
...(((.(((((((((.........((((..(((........(((.....))).....)).)..))))..)))((.((((.(((((......))))).))))...)).)))))).))).. ( -37.12)
>DroGri_CAF1 6760 120 - 1
GAAAAAAGUGGCUGGCUAUUUGAAUCUGUUGGCCAAUUCCAUAGAUAAUUUUACACAUGGCCUGGCCGUCGCUGGCUCCUUUCUCGUUUCCUUCAGGCAUGGCGUCUUGGCCACCUUUGC
...(((.((((((((((((.((.((((((.((......)))))))).......)).))))))..(((((.(((......................)))))))).....)))))).))).. ( -29.75)
>DroWil_CAF1 6956 120 - 1
UAAAAAAGUGGCCGGCUAUCUAAAUCUGUUGGCAAAUUCUAUUGAUAAUUUCACACAUGGUUUAGCUGUAGCCGGUUCGUUUUUGGUUUCCUUUAGACAUGGAGUCUUGGCCACAUUUGC
.......(((((((((((((((((((((((((.....((....)).....))).))).)))))))..))))))(((((((.(((((......))))).))))).))..))))))...... ( -34.10)
>DroMoj_CAF1 6399 120 - 1
CAGGAAAGUGGCCGGCUAUCUGAAUCUAUUGGCCAAUUCCAUUGACAAUUUCACACACGGCCUAGCGGUCGCUGGCUCCUUCCUGGUCUCCUUCAGGCACGGAGUGCUGGCUACUUUUGC
...(((((((((((((....((((...((((..((((...)))).))))))))..(((((((....))))).))(((((..(((((......)))))...)))))))))))))))))).. ( -44.70)
>DroAna_CAF1 4347 120 - 1
CAAAAAGGUGGCUGGAUAUCUGAAUCUGCUGGCAAACUCGAUCGAUAAUUUCACCCACGGCCUGGCAGUGGCUGGCUCAUUUCUAGUUUCCUUCCGGCACGGAGUUUUGGCCACAUUUGC
((((...(((((..((..((((....((((((.(((((.((..((.....)).....(((((.......))))).......)).)))))....))))))))))..))..))))).)))). ( -36.80)
>consensus
CAAAAAAGUGGCCGGCUAUCUGAAUCUGUUGGCCAAUUCCAUUGAUAAUUUCACACACGGCCUAGCAGUCGCUGGCUCCUUUCUGGUUUCCUUCAGGCACGGAGUCCUGGCCACAUUUGC
...(((.(((((((((((...........))))).......................((((((((..(..(((((.......)))))..)..)))))).)).......)))))).))).. (-25.08 = -23.28 +  -1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:40:26 2006