Locus 422

Sequence ID 3R_DroMel_CAF1
Location 1,549,026 – 1,549,118
Length 92
Max. P 0.581983
window692

overview

Window 2

Location 1,549,026 – 1,549,118
Length 92
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 79.87
Mean single sequence MFE -16.49
Consensus MFE -10.70
Energy contribution -11.37
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.65
SVM decision value 0.10
SVM RNA-class probability 0.581983
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1549026 92 + 27905053
AUCCCACAAUCCUUUCAAACGCACA-------GCACAAGG-------CACACACACAAUGCGACGUGUCCUUACAAAAAGGAUUACGCAGCAUGCUUACACAAAUG
....................((...-------((.....)-------).........((((..(((((((((.....))))).))))..))))))........... ( -17.40)
>DroVir_CAF1 60933 76 + 1
----CGCAAUCCUUUCAGCUACGCA----------------------CACACACACAA----GCGUGUCCUUACAAAAAGGAUUACGCCGCAUGCUUAGACAAAUA
----.(((.........((...)).----------------------...........----((((((((((.....))))).)))))....)))........... ( -13.80)
>DroEre_CAF1 49961 102 + 1
----CACAAUCCUUUCAUACACACAGCACACAGCACAAGGCACAAGGCACACACACAAUGCGACGUGUCCUUACAAAAAGGAUUACGCAGCAUGCUUAGACAAAUG
----....................(((.....((.....))................((((..(((((((((.....))))).))))..))))))).......... ( -17.90)
>DroYak_CAF1 46345 92 + 1
----CACAAUCCUUUCAUUCACACA-------GCACAAGGCACA---CACACACACAAUGCGACGUGUCCUUACAAAAAGGAUUACGCAGCAUGCUUAGACAAAUG
----....................(-------((....(.....---).........((((..(((((((((.....))))).))))..))))))).......... ( -15.50)
>DroAna_CAF1 48547 88 + 1
----AGCAAUCCUUUCAGACACACA-------CCACACGG-------CUCGCAUACAAUGCGACGUGUCCUUACAAAAAGGAUUACGCAGCAUGCUUAGAUAAAUG
----.((((((((((..(((((...-------((....))-------.((((((...)))))).))))).......))))))))..)).................. ( -19.70)
>DroPer_CAF1 51973 86 + 1
----AGCAAUCCUUUCAGACACACA-------CCGCACGG-------CG--CACACAAUGAGACGUGUCCUUACAAAAAGGAUUACGCAGCAUGCUUAGACAAAUG
----((((....(((((......(.-------((....))-------.)--.......)))))(((((((((.....))))).)))).....)))).......... ( -14.62)
>consensus
____CACAAUCCUUUCAGACACACA_______GCACAAGG_______CACACACACAAUGCGACGUGUCCUUACAAAAAGGAUUACGCAGCAUGCUUAGACAAAUG
.........................................................((((..(((((((((.....))))).))))..))))............. (-10.70 = -11.37 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:50 2006