Locus 1310

Sequence ID 3R_DroMel_CAF1
Location 3,853,926 – 3,854,057
Length 131
Max. P 0.981557
window2149 window2150

overview

Window 9

Location 3,853,926 – 3,854,028
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 85.93
Mean single sequence MFE -24.08
Consensus MFE -18.27
Energy contribution -19.02
Covariance contribution 0.75
Combinations/Pair 1.21
Mean z-score -2.85
Structure conservation index 0.76
SVM decision value 1.89
SVM RNA-class probability 0.981557
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3853926 102 - 27905053
CAUAAUUUGUAGUGCAUUGUUGUUUUAUUAUUGCAGAUUAAUCGGGGCCUUGUGCAAGGUUUCUAACAUUUUCAAUAAAAUAAAAAUCGAAGCAACUAUAAC
......(((((((((.(((...(((((((((((.((((.....(..(((((....)))))..)....)))).)))))..))))))..))).)).))))))). ( -24.10)
>DroSec_CAF1 11944 97 - 1
CAUAAGUUGUAGUACAUUGUUGCUUUAUUAUUGGAGAUUAAUGGGGGCCUUGUGAAAGGUUUCUAACAUUUUCAAUA-----AAAAUCGAAGCAACUAUAAC
.....((((((((.......((((((.(((((((((((...(((..(((((....)))))..)))..))))))))))-----).....)))))))))))))) ( -29.71)
>DroSim_CAF1 12423 97 - 1
CAUAAUUUGUAGUACAUUGUUGUUUUAUUAUUGGAGAUUAAUGGGGGCCUUGUGAAAGGUUUCUAACAUUUUCAAUA-----AAAAUCGAAGCAACUAUAAC
......(((((((....((((...((.(((((((((((...(((..(((((....)))))..)))..))))))))))-----).))....))))))))))). ( -26.20)
>DroEre_CAF1 12290 97 - 1
CAUAAUUUGUAUCGUAUUGUUGUUCUAUUAUUGAAGAAUAGCAGAACUCUUGUGCAAGGUUCCUAACCUUUUCAAUA-----AAAAUCAAAGCAACUAUUAC
.............(((..((((((...((((((((((......((((.(((....)))))))......)))))))))-----).......))))))...))) ( -16.30)
>consensus
CAUAAUUUGUAGUACAUUGUUGUUUUAUUAUUGGAGAUUAAUGGGGGCCUUGUGAAAGGUUUCUAACAUUUUCAAUA_____AAAAUCGAAGCAACUAUAAC
..................((((((((..((((((((((...((((((((((....))))))))))..))))))))))...........))))))))...... (-18.27 = -19.02 +   0.75)

alignment

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secondary structure

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dotplot

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Window 0

Location 3,853,962 – 3,854,057
Length 95
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 85.61
Mean single sequence MFE -26.40
Consensus MFE -16.64
Energy contribution -17.20
Covariance contribution 0.56
Combinations/Pair 1.19
Mean z-score -3.75
Structure conservation index 0.63
SVM decision value 1.47
SVM RNA-class probability 0.957057
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3853962 95 - 27905053
AUUAGACAGUGUACAAAGUUUUGUUUAUACAUAAUUUGUAGUGCAUUGUUGUUUUAUUAUUGCAGAUUAAUCGGGGCCUUGUGCAAGGUUUCUAA
....((((((((((.(((((.(((....))).)))))...))))))))))......................(..(((((....)))))..)... ( -24.80)
>DroSec_CAF1 11975 95 - 1
AUUAGACAAUGUACAAAGAUUUGUUUAUACAUAAGUUGUAGUACAUUGUUGCUUUAUUAUUGGAGAUUAAUGGGGGCCUUGUGAAAGGUUUCUAA
....((((((((((...(((((((......)))))))...)))))))))).(((((....))))).....(((..(((((....)))))..))). ( -29.10)
>DroSim_CAF1 12454 95 - 1
AUUAGACAAUGUACAAAGAUUUGUUUAUACAUAAUUUGUAGUACAUUGUUGUUUUAUUAUUGGAGAUUAAUGGGGGCCUUGUGAAAGGUUUCUAA
....((((((((((..((((((((....))).)))))...))))))))))....................(((..(((((....)))))..))). ( -26.30)
>DroEre_CAF1 12321 94 - 1
CUUAGACAGUGUACAAAGAUACGUU-ACACAUAAUUUGUAUCGUAUUGUUGUUCUAUUAUUGAAGAAUAGCAGAACUCUUGUGCAAGGUUCCUAA
....(((..(((((((.((((((..-..........))))))((.((((((((((........)))))))))).))..)))))))..)))..... ( -25.40)
>consensus
AUUAGACAAUGUACAAAGAUUUGUUUAUACAUAAUUUGUAGUACAUUGUUGUUUUAUUAUUGGAGAUUAAUGGGGGCCUUGUGAAAGGUUUCUAA
....(((((((((((((....(((....)))...))))))...)))))))....................((((((((((....)))))))))). (-16.64 = -17.20 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:30 2006