Locus 323

Sequence ID 3R_DroMel_CAF1
Location 1,244,624 – 1,244,740
Length 116
Max. P 0.586990
window544

overview

Window 4

Location 1,244,624 – 1,244,740
Length 116
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 82.91
Mean single sequence MFE -34.12
Consensus MFE -20.07
Energy contribution -21.43
Covariance contribution 1.37
Combinations/Pair 1.19
Mean z-score -2.44
Structure conservation index 0.59
SVM decision value 0.11
SVM RNA-class probability 0.586990
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1244624 116 + 27905053
AAUGUCCUUGUAUGCUAAACCAAAGCCUCUUAGCAGCUUCCGAUGAUAAAACAUUUUAAGCUGAUUCAAUGCGUUCAAUUUCAAUGCAAUUGAAUCGACUUCGGGUUUGGUU--GGCG
.............(((((.(((((.((.......(((((..((((......))))..)))))(((((((((((((.......))))).))))))))......)).)))))))--))). ( -34.80)
>DroSec_CAF1 18477 116 + 1
AAUGUCCUUGUAAGCUAAUCCAAAGCCUCUUAGCAGCUUUCGAUGGUAGAACAUUUUAAGCUGAUUCAAUGCGUUCAAUUUCAACGCAAUUGAAUCGACUUCGGGCUUGGCU--GGCG
.............((((..((((.((((...((((((((..((((......))))..)))))(((((((((((((.......))))).))))))))).))..)))))))).)--))). ( -37.50)
>DroSim_CAF1 18807 116 + 1
AAUGUCCUUGUAUGCUAAACCAAAGCCUCUUAGCAGCUUUCGAUGGUAGAACAUUUUAAGCUGAUUCAAUGCGUUCAAUUUCAAUGCAAUUGAAUCGACUUCGGGCUUGGCU--GGCG
.............((((..((((.((((...((((((((..((((......))))..)))))(((((((((((((.......))))).))))))))).))..)))))))).)--))). ( -35.40)
>DroEre_CAF1 18805 116 + 1
AAGGCCUUUGUAUGCUAAACCAAAGCCUCUUAGGAGCUUAGGAUGGUAGAACAUUUUAAGCUGAUUCAAUGCGUUCAAUUUCAAUGCAAUUGACCCGAGUUCCGGCUUGGCU--GGCA
............(((((..((((.(((.((..(((((((((((((......)))))))))))...((((((((((.......))))).)))))))..))....))))))).)--)))) ( -36.60)
>DroYak_CAF1 24671 116 + 1
AACGCCUUUGUAUGCCAAACCAAAGCCUCUUAGCAACUUUGGAUGGUAGAACAUUUUAAGCUGAUUCAAUGCGUUCAAUUUCAAUGCAAUUGACCCGAGUUCGGGUUUGGCU--AGGA
....(((.(((.(((((..((((((...........)))))).)))))..))).....(((..(.((((((((((.......))))).)))))((((....)))).)..)))--))). ( -31.60)
>DroAna_CAF1 19514 117 + 1
ACAUCCAUUGAGCAGUAAAGCAAAGCCUCUUAAGAGCUUUCAAUCGUAUAACGUUUUAAGCUGCUGCAUUGCGUUGAAUUUGAAUGCAAUCGAUCCAAC-UCGGGAUGGGACACACAA
.(((((.....(((((..((((((((.((....)))))))....((.....))......))))))))((((((((.......))))))))(((......-)))))))).......... ( -28.80)
>consensus
AAUGCCCUUGUAUGCUAAACCAAAGCCUCUUAGCAGCUUUCGAUGGUAGAACAUUUUAAGCUGAUUCAAUGCGUUCAAUUUCAAUGCAAUUGAACCGACUUCGGGCUUGGCU__GGCA
.............(((...((((.((((.....((((((..((((......))))..))))))..((((((((((.......))))).))))).........))))))))....))). (-20.07 = -21.43 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:25 2006