Locus 7891

Sequence ID 3L_DroMel_CAF1
Location 21,038,778 – 21,038,898
Length 120
Max. P 0.937593
window12843 window12844

overview

Window 3

Location 21,038,778 – 21,038,898
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.31
Mean single sequence MFE -28.83
Consensus MFE -24.66
Energy contribution -25.10
Covariance contribution 0.44
Combinations/Pair 1.06
Mean z-score -2.29
Structure conservation index 0.86
SVM decision value 1.26
SVM RNA-class probability 0.937593
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21038778 120 + 23771897
CAACAGCCUGCAAAUAAAAAAACGAGAGGAAAGCGCAAAAAAGUAAUAAAAUCAACUGAAAUUGCUUAACACCCGGAGUAAAGUGAUAAUGGCUGGAUUUAUUCACUUGCGCGCUGCUGG
...((((..((...........(....)....(((((....(((((((((.(((.(((..((..(((.((.......)).)))..))..))).))).)))))).)))))))))).)))). ( -28.70)
>DroSec_CAF1 93942 119 + 1
CAACAGCCUGCAAAUAAAAAAACGAGAGGAAAGCGCAAA-AAGUAAUAAAAUCAGCUGGAAUUGCUUAACACCCGGAGUAAAGUGAUAAUGGUUGGAUUUAUUCACUUGCACGCUGCUGG
((.((((.(((...........(....)...........-((((((((((.(((((((..((..(((.((.......)).)))..))..))))))).)))))).))))))).)))).)). ( -29.50)
>DroSim_CAF1 147 119 + 1
CAACAGCCUGCAAAUAAAAAAACGAGAGGAAAGCGCAAA-AAGUAAUAAAAUCAGCUGAAAUUGCUUAACACCCGGAGUAAAGUGAUAAUGGUUGGAUUUAUUCACUUGCACGCUGCUGG
((.((((.(((...........(....)...........-((((((((((.(((((((..((..(((.((.......)).)))..))..))))))).)))))).))))))).)))).)). ( -28.20)
>DroEre_CAF1 15961 119 + 1
CAACAGCCUGCAUAUAAAAAGCCGAAAGGAAAGCGCAAA-AAGUAAUAAAAUCAACUGAAAUUGCUUAACACCCUGAGUAAAGUUAUGAUGGUUAGAUUUAUUUAUUUGCUCGCUGCUGG
...((((..((..........((....))...(.(((((-((((((...(((((.((((..(((((((......)))))))..))).).)))))....)))))).))))).))).)))). ( -28.90)
>consensus
CAACAGCCUGCAAAUAAAAAAACGAGAGGAAAGCGCAAA_AAGUAAUAAAAUCAACUGAAAUUGCUUAACACCCGGAGUAAAGUGAUAAUGGUUGGAUUUAUUCACUUGCACGCUGCUGG
...((((..((...........(....)....(.(((....(((((((((.(((((((..(((((((.((.......)).)))))))..))))))).)))))).)))))).))).)))). (-24.66 = -25.10 +   0.44)

alignment

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secondary structure

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dotplot

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Window 4

Location 21,038,778 – 21,038,898
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.31
Mean single sequence MFE -27.40
Consensus MFE -24.92
Energy contribution -26.30
Covariance contribution 1.38
Combinations/Pair 1.05
Mean z-score -1.87
Structure conservation index 0.91
SVM decision value 1.06
SVM RNA-class probability 0.908675
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21038778 120 - 23771897
CCAGCAGCGCGCAAGUGAAUAAAUCCAGCCAUUAUCACUUUACUCCGGGUGUUAAGCAAUUUCAGUUGAUUUUAUUACUUUUUUGCGCUUUCCUCUCGUUUUUUUAUUUGCAGGCUGUUG
.(((((((..(((((((((.((((.......(((.(((((......))))).)))((((....(((..........)))...))))...........)))).)))))))))..))))))) ( -27.20)
>DroSec_CAF1 93942 119 - 1
CCAGCAGCGUGCAAGUGAAUAAAUCCAACCAUUAUCACUUUACUCCGGGUGUUAAGCAAUUCCAGCUGAUUUUAUUACUU-UUUGCGCUUUCCUCUCGUUUUUUUAUUUGCAGGCUGUUG
.(((((((.((((((((((.((((.......(((.(((((......))))).)))((((....((.((((...)))))).-.))))...........)))).)))))))))).))))))) ( -30.50)
>DroSim_CAF1 147 119 - 1
CCAGCAGCGUGCAAGUGAAUAAAUCCAACCAUUAUCACUUUACUCCGGGUGUUAAGCAAUUUCAGCUGAUUUUAUUACUU-UUUGCGCUUUCCUCUCGUUUUUUUAUUUGCAGGCUGUUG
.(((((((.((((((((((.((((.......(((.(((((......))))).)))((((....((.((((...)))))).-.))))...........)))).)))))))))).))))))) ( -30.50)
>DroEre_CAF1 15961 119 - 1
CCAGCAGCGAGCAAAUAAAUAAAUCUAACCAUCAUAACUUUACUCAGGGUGUUAAGCAAUUUCAGUUGAUUUUAUUACUU-UUUGCGCUUUCCUUUCGGCUUUUUAUAUGCAGGCUGUUG
.(((((((..(((.(((((..........................(((((((.(((.(((.((....))....))).)))-...)))))))((....))...))))).)))..))))))) ( -21.40)
>consensus
CCAGCAGCGUGCAAGUGAAUAAAUCCAACCAUUAUCACUUUACUCCGGGUGUUAAGCAAUUUCAGCUGAUUUUAUUACUU_UUUGCGCUUUCCUCUCGUUUUUUUAUUUGCAGGCUGUUG
.(((((((.((((((((((.((((.......(((.(((((......))))).)))((((....((.((((...))))))...))))...........)))).)))))))))).))))))) (-24.92 = -26.30 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:39 2006