Locus 3068

Sequence ID 2R_DroMel_CAF1
Location 10,539,387 – 10,539,547
Length 160
Max. P 0.993296
window5059 window5060

overview

Window 9

Location 10,539,387 – 10,539,507
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.92
Mean single sequence MFE -30.62
Consensus MFE -13.71
Energy contribution -14.63
Covariance contribution 0.92
Combinations/Pair 1.36
Mean z-score -2.41
Structure conservation index 0.45
SVM decision value 2.39
SVM RNA-class probability 0.993296
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10539387 120 + 20766785
UCAUAGCUCUCCGGUGAUAUGUUCAAUACUUUCAAAUCGAAUGGUGUUACCACACCAUUGGCAAUUAUUUCAAGUUUUUCCAUUUGGCAGUGGUAAAAGCACUUCACCCGACUGCUGUGC
.((((((..((.(((((..((((...((((.((((((.(((((((((....))))))((((........))))....))).)))))).)))).....))))..))))).))..)))))). ( -36.30)
>DroSec_CAF1 32648 120 + 1
UCAUAGCUCUCCGGUGUUAUGUUUAGUACUUUCAAAUCGAAAGGAGUUACCACACCAUUGGCAAUUAUUUCAAGUUUUUCCAUUUGACAGUGGUAGAAGCACUUCACUCGACUGCUGUGC
.((((((..((.((((...(((((....(((((.....)))))...(((((((.((...))........((((((......))))))..))))))))))))...)))).))..)))))). ( -31.70)
>DroSim_CAF1 29075 120 + 1
UCAUAGCUCUCCGGUGAUAUGUUUAGUACUUUCAAAUCGAAAGGAGUUACCACACCAUUGGCAAUUAUUUCAAGUUUUUCCAUUUGGCAGUGAUAAAAGCACUUCACUCGACUGCUGUGC
.((((((..((.(((((..(((((..((((.((((((.((((((((((.(((......))).))))........)))))).)))))).))))....)))))..))))).))..)))))). ( -31.70)
>DroEre_CAF1 34453 95 + 1
UUGUAGUUUUCCUGUGUGUUAUUCGGAUUGGAUACAUCGAAUGGGUUGAUCACUCCAUUGUCAGCCACUUUUAGCUUUUCCAUCUGACAAUACA-----C--------------------
.............(((((((..((((((.(((......(((..((((((.((......))))))))...)))......))))))))).))))))-----)-------------------- ( -23.30)
>DroYak_CAF1 32808 120 + 1
UCAUAGUUCUCCGGUGUUAUAUUGAGUACGUGCGGAUCAAAACUAGUCACCACACCAUUGGCAAUUAUUUCAAGUUUUUCCAUUUGGCAAUGGUAAAAACACUUCACCCGGCUGCUGUGU
.((((((...((((.((......((((..(((..(((........)))..)))(((((((.(((...................))).)))))))......)))).))))))..)))))). ( -30.11)
>consensus
UCAUAGCUCUCCGGUGUUAUGUUCAGUACUUUCAAAUCGAAAGGAGUUACCACACCAUUGGCAAUUAUUUCAAGUUUUUCCAUUUGGCAGUGGUAAAAGCACUUCACCCGACUGCUGUGC
.((((((..((.((((.(((.....))).........................(((((((.(((...................))).)))))))..........)))).))..)))))). (-13.71 = -14.63 +   0.92)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,539,427 – 10,539,547
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.67
Mean single sequence MFE -30.60
Consensus MFE -24.26
Energy contribution -24.82
Covariance contribution 0.56
Combinations/Pair 1.16
Mean z-score -1.98
Structure conservation index 0.79
SVM decision value 0.59
SVM RNA-class probability 0.792979
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10539427 120 - 20766785
AAAAACUGGGAAUUACCCCAGAUUACUUCGAAAAUUUUCCGCACAGCAGUCGGGUGAAGUGCUUUUACCACUGCCAAAUGGAAAAACUUGAAAUAAUUGCCAAUGGUGUGGUAACACCAU
.....(((((......)))))((((.(((((...(((((((....(((((..(((((((...))))))))))))....)))))))..))))).)))).....(((((((....))))))) ( -37.40)
>DroSec_CAF1 32688 120 - 1
AAAAACUGGGCAUUACCCCAGAUUACUUCGAAAAUUUUCCGCACAGCAGUCGAGUGAAGUGCUUCUACCACUGUCAAAUGGAAAAACUUGAAAUAAUUGCCAAUGGUGUGGUAACUCCUU
.....(((((......)))))((((.(((((...(((((((....(((((.(.(((((....))).))))))))....)))))))..))))).))))(((((......)))))....... ( -28.10)
>DroSim_CAF1 29115 120 - 1
AAAAACUGGGCAUUACCCCAGAUUACUUUGAAAAUUUUCCGCACAGCAGUCGAGUGAAGUGCUUUUAUCACUGCCAAAUGGAAAAACUUGAAAUAAUUGCCAAUGGUGUGGUAACUCCUU
.....(((((......)))))((((.((..(...(((((((....(((((.((..(((....)))..)))))))....)))))))..)..)).))))(((((......)))))....... ( -26.30)
>DroYak_CAF1 32848 120 - 1
AAAAACUGGGAAUUACCGAAGAUUACUUUGAGAACUUUCCACACAGCAGCCGGGUGAAGUGUUUUUACCAUUGCCAAAUGGAAAAACUUGAAAUAAUUGCCAAUGGUGUGGUGACUAGUU
...((((((..(((((....(((((.((..((...((((((....((((...(((((((...))))))).))))....))))))..))..)).)))))(((...))))))))..)))))) ( -30.60)
>consensus
AAAAACUGGGAAUUACCCCAGAUUACUUCGAAAAUUUUCCGCACAGCAGUCGAGUGAAGUGCUUUUACCACUGCCAAAUGGAAAAACUUGAAAUAAUUGCCAAUGGUGUGGUAACUCCUU
.....(((((......))))).(((.(((((...(((((((....(((((..(((((((...))))))))))))....)))))))..))))).)))((((((......))))))...... (-24.26 = -24.82 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:38 2006