Locus 5817

Sequence ID 2L_DroMel_CAF1
Location 16,484,653 – 16,484,773
Length 120
Max. P 0.527581
window9233

overview

Window 3

Location 16,484,653 – 16,484,773
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.47
Mean single sequence MFE -28.40
Consensus MFE -19.70
Energy contribution -21.57
Covariance contribution 1.87
Combinations/Pair 1.14
Mean z-score -1.57
Structure conservation index 0.69
SVM decision value -0.01
SVM RNA-class probability 0.527581
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16484653 120 - 22407834
CAGAGUAAUGAUUUCACUGGAAGGAACCUUUAUGAUAUAGAGAACGGAUAGAAUUUCAAUAAAACUGUUCGGCAGUUGAGAUUCUUCUCCAAAAGUGGGUGUAUUUAAUUCUACCAUGUA
.(((((((((..((((((.((((....))))..............(((.(((((((((.....((((.....)))))))))))))..)))...))))))..))))..)))))........ ( -25.90)
>DroSec_CAF1 109640 120 - 1
CAGAGUAAUGAUUUCACCGGAAGGAACCUUCAUGACAUACAGAACGGAUAGAAUUUCAAUAAAACUGUUCGGCAGUUGAGAUUCUUCUCCGAAAGUGGGUGUAUUUAAUUCUACCAUGUA
.(((((...(((..((((.((((....)))).............((((.(((((((((.....((((.....)))))))))))))..))))......)))).)))..)))))........ ( -30.90)
>DroSim_CAF1 106916 120 - 1
CAGAGUAAUGAUUUCACUAGAAGGAACCUUCAUGACAUACAGAACGGAUAGAAUUUCAAUAAAACUGUUUGGCAGUUGAGAUUCUUCUCCGAAAGUGGGGGUAUUCAAUUCUACCAUGUA
..(((((....(..((((.((((....)))).............((((.(((((((((.....((((.....)))))))))))))..))))..))))..).))))).............. ( -32.90)
>DroYak_CAF1 111698 120 - 1
CAGAGAAAUAAUAUCACUGGAAGGGACUUUCAUGAUAUAGAAAAUUGAUAGAAUUUCAAUAAAACUGUUCGGCAGUUGGGAUUCAUCUACAAAUGUGGGAACAUCUAAUUCGACCAGGUA
....(((....(((((.((((((...)))))))))))((((.........((((..((.....((((.....))))))..)))).(((((....)))))....)))).)))......... ( -23.90)
>consensus
CAGAGUAAUGAUUUCACUGGAAGGAACCUUCAUGACAUACAGAACGGAUAGAAUUUCAAUAAAACUGUUCGGCAGUUGAGAUUCUUCUCCAAAAGUGGGUGUAUUUAAUUCUACCAUGUA
.(((((((((.((((((..((((....)))).............((((.(((((((((.....((((.....)))))))))))))..))))...)))))).))))..)))))........ (-19.70 = -21.57 +   1.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:45 2006