Locus 6667

Sequence ID 2L_DroMel_CAF1
Location 18,700,954 – 18,701,154
Length 200
Max. P 0.914632
window10631 window10632

overview

Window 1

Location 18,700,954 – 18,701,074
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.67
Mean single sequence MFE -41.80
Consensus MFE -28.84
Energy contribution -28.32
Covariance contribution -0.52
Combinations/Pair 1.41
Mean z-score -2.86
Structure conservation index 0.69
SVM decision value 1.10
SVM RNA-class probability 0.914632
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18700954 120 - 22407834
AUCCUUCAAAGAUUAUUACUGGUCUGCUGGUGCAGGCUUUGAUCAUAGGCGUUAUCUGGCAGUUCUUCAGCGGAAAGUCGAAGAAGAACUUCAUCGCCAGUCGUCUGACUGGUGGAAAUG
.(((.(((..(((((.....(((((((....))))))).))))).((((((....(((((((((((((..(((....)))..)))))))).....))))).))))))..))).))).... ( -44.20)
>DroSec_CAF1 273 120 - 1
AUCCUUCAAAGAUUAUUACUGGUCUGCUGGUGCAGGCUUUGAUCAUAGGCGUUAUCUGGCAGUUCUUCAGCGGAAAGUCGAAGAAGAACUUCAUCGCUAGUCGUCUGACCGGCGGAAAUG
.(((.((...(((((.....(((((((....))))))).))))).((((((....(((((((((((((..(((....)))..)))))))).....))))).))))))...)).))).... ( -41.40)
>DroEre_CAF1 271 118 - 1
AUCCUUCAAAGAUUGUCACUGGUCUGCUGGUGCAGGCUAUAAUCAUAGCCGUAAUCUGGCAGUUCUUCAGUGGAAAGUCGAAGAAUAAAUUCAUCGCCAGUCGUCUGACUGGGGGAAA--
.((((.....((((.(((((((.((((..(....((((((....)))))).....)..))))....)))))))..))))((.(((....))).)).((((((....))))))))))..-- ( -42.40)
>DroWil_CAF1 279 120 - 1
AUCCCACGAAAAUUGUGAGUGGUCUCAUUGUUCAAGCUCUGAUCAUUGCCGUAAUUUGGCAAUUUUUCAGUGUGAAAACAAAGAAAAAUUUUAUUGCCAGUCGUCUGGGUGGUGGCAAUG
.((((((.((((((.((((....))))(((((...((.((((..(((((((.....)))))))...)))).))...))))).....))))))....((((....)))))))).))..... ( -33.40)
>DroYak_CAF1 273 120 - 1
AUCCUUCAAAGAUUGUCACUGGUCUGCUGGUGCAGGCUUUAAUCAUAGGCGUAAUCUGGCAGUUCUUCAGUGGAAAGUCGAAGAAGAACUUCAUCGCCAGUCGUCUGACAGGGGGAAAUG
.((((((...(((((.....(((((((....))))))).))))).((((((....(((((((((((((..(((....)))..)))))))).....))))).))))))...)))))).... ( -45.50)
>DroAna_CAF1 273 120 - 1
AUCCGGCCAAGAUCAUCAGUGGCCUGAUUGUCCAGGCCCUGAUCAUCGCUGUGAUCUGGCAGUUUUUCAGUGGAAAGUCCAAGUCCAACUUUAUAGCUAGCCGUUUGACUGGCGGAAAUG
.((((.(((.(((.(((((.((((((......))))))))))).)))...((.(..((((((((....((((((.........))).)))....)))).))))..).))))))))).... ( -43.90)
>consensus
AUCCUUCAAAGAUUAUCACUGGUCUGCUGGUGCAGGCUUUGAUCAUAGCCGUAAUCUGGCAGUUCUUCAGUGGAAAGUCGAAGAAGAACUUCAUCGCCAGUCGUCUGACUGGCGGAAAUG
.(((..(...(((((.....(((((((....))))))).))))).(((.((....(((((((((((((..(((....)))..)))))))).....))))).)).)))...)..))).... (-28.84 = -28.32 +  -0.52)

alignment

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secondary structure

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dotplot

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Window 2

Location 18,701,034 – 18,701,154
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.89
Mean single sequence MFE -27.39
Consensus MFE -19.78
Energy contribution -19.20
Covariance contribution -0.58
Combinations/Pair 1.42
Mean z-score -1.83
Structure conservation index 0.72
SVM decision value 0.04
SVM RNA-class probability 0.556118
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18701034 120 - 22407834
GGUGGUGAAGAACCUGCUCUAUUACCAAACAAACUACUUUUUGCUCUUCAUUACCAUCUACGUUUUGAUGAUUUUCUUCAAUCCUUCAAAGAUUAUUACUGGUCUGCUGGUGCAGGCUUU
(((((((((((....((.........................))))))))))))).......((((((.((((......))))..)))))).........(((((((....))))))).. ( -28.11)
>DroSim_CAF1 353 120 - 1
GGUGGUGAAGAACCUGCUCUACUAUCAAACAAAUUACUUUUUGCUCUUCCUUACCAUCUACGCUUUGAUGAUUUUCUGCAAUCCUUCAAAGAUUAUUACUGGUCUGCUGGUGCAGGCUUU
((((((((.(((...((.........................))..))).))))))))....((((((.((((......))))..)))))).........(((((((....))))))).. ( -28.41)
>DroEre_CAF1 349 120 - 1
GGUGGUGAAGAACCUGCUGUACUACCAAACCAACUACUUUCUGCUCUUCCUUACCAUCUACGUUUUGAUGAUUUUCUUCAAUCCUUCAAAGAUUGUCACUGGUCUGCUGGUGCAGGCUAU
((((((((.(((...((.........................))..))).)))))))).......(((..(((((.............)))))..))).((((((((....)))))))). ( -27.63)
>DroWil_CAF1 359 120 - 1
UGUGGUAAAGAAUUUACUUUACUACCAAACCAAUUAUUUCCUACUCUUCCUUACAAUCUAUGCCCUGAUGAUUUUCUUCAAUCCCACGAAAAUUGUGAGUGGUCUCAUUGUUCAAGCUCU
.(((((((((......)))))))))........................((((((((....(((((.(..((((((...........))))))..).)).)))...)))))..))).... ( -22.60)
>DroYak_CAF1 353 120 - 1
GGUAGUGAAGAAUUUGCUGUACUACCAAACCAACUACUUUCUGCUCUUCCUUACGAUUUACGUUUUGAUGAUUUUCUUCAAUCCUUCAAAGAUUGUCACUGGUCUGCUGGUGCAGGCUUU
(((((((.((......)).)))))))............................(((.....((((((.((((......))))..))))))...)))...(((((((....))))))).. ( -26.80)
>DroAna_CAF1 353 120 - 1
AGUGGUGAAGAACUUGCUCUACUACCAAACCAAUUACUUUUUGCUCUUCCUGACCAUCUACGUCCUGAUGAUUGUCUGCAAUCCGGCCAAGAUCAUCAGUGGCCUGAUUGUCCAGGCCCU
.(((((.(.(((...((.........................))..))).).))))).......(((((((((....((......))...))))))))).((((((......)))))).. ( -30.81)
>consensus
GGUGGUGAAGAACCUGCUCUACUACCAAACCAACUACUUUCUGCUCUUCCUUACCAUCUACGUUUUGAUGAUUUUCUUCAAUCCUUCAAAGAUUAUCACUGGUCUGCUGGUGCAGGCUUU
(((((((.((......)).))))))).......................................((((((((((.............))))))))))..(((((((....))))))).. (-19.78 = -19.20 +  -0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:50 2006