Locus 7644

Sequence ID 3L_DroMel_CAF1
Location 20,558,840 – 20,559,022
Length 182
Max. P 0.952597
window12419 window12420

overview

Window 9

Location 20,558,840 – 20,558,956
Length 116
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 94.83
Mean single sequence MFE -27.61
Consensus MFE -25.15
Energy contribution -24.71
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -1.64
Structure conservation index 0.91
SVM decision value -0.02
SVM RNA-class probability 0.523064
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20558840 116 - 23771897
CCGAAACCGAAUUCCAAAUAAACUAAAACCACUGAGGCUGCCAAAUGUGAAACAUGCAAAGAGCAUCGGGCAUCCAACUGCCGCAAGGUGGAAAUCAAUUUUGGUUUCUUUCGUUU
..(((((((((........................((.((((..((((..............))))..)))).))..(..((....))..)........)))))))))........ ( -31.34)
>DroSim_CAF1 102204 116 - 1
CCGAAACCGAAUUCCAAAUAAACCAAAACCACUGAGGCUGCCAAAUGUGAAACAUGCAAAGAGCAUCGGGCAUCCAACUGCCGCAAGGUGGAAAUCAAUUUUGUUUUCUUUCGUUU
.(((((..(((..(.((((................((.((((..((((..............))))..)))).))..(..((....))..)......)))).)..))))))))... ( -26.04)
>DroEre_CAF1 103419 116 - 1
CCAAAACCGAAUUUCAAAUAAACUAAGUCCACUCAGGCUGCCAAAUGUAAAACAUGCAAAGAGCAUCGGGCAUCCAAGUGCCGCAAGGUGGAAAUCAAUUUUGUUUUCUUUCGUUU
.......((((....(((((((.....(((.....((.((((..((((..............))))..)))).))....(((....)))))).......)))))))...))))... ( -25.44)
>consensus
CCGAAACCGAAUUCCAAAUAAACUAAAACCACUGAGGCUGCCAAAUGUGAAACAUGCAAAGAGCAUCGGGCAUCCAACUGCCGCAAGGUGGAAAUCAAUUUUGUUUUCUUUCGUUU
.(((((..((.((((....................((.((((..((((..............))))..)))).))....(((....))))))).))..)))))............. (-25.15 = -24.71 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,558,916 – 20,559,022
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 94.97
Mean single sequence MFE -33.47
Consensus MFE -32.31
Energy contribution -32.43
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -2.29
Structure conservation index 0.97
SVM decision value 1.42
SVM RNA-class probability 0.952597
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20558916 106 + 23771897
CAGCCUCAGUGGUUUUAGUUUAUUUGGAAUUCGGUUUCGGUUUGCAGCUUUCCGUUCGGAUGGCUUUUAUGCGGACGGAGAAGUAUGCAAAUGAGAUCAUUGAUCU
.....(((((((((((........((((((...))))))(((((((((((((((((((.(((.....))).))))))))).))).))))))))))))))))))... ( -35.40)
>DroSim_CAF1 102280 106 + 1
CAGCCUCAGUGGUUUUGGUUUAUUUGGAAUUCGGUUUCGGUUUGCAGCUUUCCGUUCGGAUGGCUUUUAUGCGGACGGAGAAGUAUGCAAAUGAGAUCAUUGAUCU
.....(((((((((((........((((((...))))))(((((((((((((((((((.(((.....))).))))))))).))).))))))))))))))))))... ( -35.40)
>DroEre_CAF1 103495 106 + 1
CAGCCUGAGUGGACUUAGUUUAUUUGAAAUUCGGUUUUGGUUUGCAGCUCUCCGUUCGGAUGGCUUUUAUGCGGUCGGAGAAGUAUGCAAAUGAGAUCAUUGAUCU
....(((((....)))))............((((((((.(((((((((((((((..((.(((.....))).))..))))).))).))))))).)))..)))))... ( -29.60)
>consensus
CAGCCUCAGUGGUUUUAGUUUAUUUGGAAUUCGGUUUCGGUUUGCAGCUUUCCGUUCGGAUGGCUUUUAUGCGGACGGAGAAGUAUGCAAAUGAGAUCAUUGAUCU
.....(((((((((((........((((((...))))))(((((((((((((((((((.(((.....))).))))))))).))).))))))))))))))))))... (-32.31 = -32.43 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:33 2006