Locus 1080

Sequence ID 3L_DroMel_CAF1
Location 3,155,944 – 3,156,042
Length 98
Max. P 0.651565
window1671

overview

Window 1

Location 3,155,944 – 3,156,042
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 80.41
Mean single sequence MFE -39.65
Consensus MFE -23.70
Energy contribution -22.68
Covariance contribution -1.02
Combinations/Pair 1.42
Mean z-score -1.82
Structure conservation index 0.60
SVM decision value 0.25
SVM RNA-class probability 0.651565
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3155944 98 + 23771897
UGGAGCCAAGGUAGCUGGCGGGCCCGGCGCCAACAGACCAACAGUUGGAGGCACCAACUGAGGAGACCACAGUGCCAGGGAUCCACUGGCCAGGGUAA
....(((......((..(.(((((((((((...........(((((((.....))))))).(....)....))))).))).))).)..))...))).. ( -37.80)
>DroSec_CAF1 2847 98 + 1
UGGAGCUAAGGUAGCUGGCGGGGACGGCGGCAACAGACCACCAGUUGGUGGCACCAACUGAGGAGACCACAGUGCCAGGGAUCCACUGGCCAAGGUAA
..........((.((((.((....)).)))).)).(.(((((....))))))(((.((((.(....)..))))((((((....).)))))...))).. ( -39.00)
>DroSim_CAF1 3216 98 + 1
UGGAGCUAAUGUAGCUGGCGGGGACGGCGGCAACAGACCACCAGUUGGAGGCACCAACUGAGGAGACCACAGGGCCAGGGAUCCACUGGCCAAGGUAA
.((......(((.((((.((....)).)))).)))..((..(((((((.....))))))).))...))((..(((((((....).))))))...)).. ( -41.50)
>DroEre_CAF1 3914 98 + 1
UGGAGCCAAGGUGGCUGGCGGGGGCUGCGGAAACAGACCACCGGGUGGAGGCACCACCUGAGGCGACCACAGUGCCAGGGAUCCACUGACCAGAGUGA
(((.(((..(((((((.((((...))))(....))).)))))((((((.....))))))..))).....(((((.........))))).)))...... ( -37.10)
>DroYak_CAF1 3449 98 + 1
UGGAGCCAAGGUGGCUGGCGGUGGCUGCGGCAACAGAACACCAGUUGGAGGCACCAACUGAGGAGGCCACAGUGCCAGGGAUCCACUGACCAGGGUGA
....(((..((((((((((.((((((..(....)....(..(((((((.....)))))))..).))))))...)))))....)))))......))).. ( -40.00)
>DroAna_CAF1 2825 98 + 1
CGGAGCUAGUGUUCCAAUCGGAACGGGCGGAUACUGCCCAUUAGGUGGCCCCAAUAGCUGAGGUGGCCACUGGGCGAGGGAGCUGCUGGCCAAAGAGA
..(.(((((((((((..(((....((((((...))))))....(((((((((.........)).)))))))...))).))))).)))))))....... ( -42.50)
>consensus
UGGAGCCAAGGUAGCUGGCGGGGACGGCGGCAACAGACCACCAGUUGGAGGCACCAACUGAGGAGACCACAGUGCCAGGGAUCCACUGGCCAAGGUAA
((((.((..(((.((((..((.......(....)....(..(((((((.....)))))))..)...)).)))))))..)).))))............. (-23.70 = -22.68 +  -1.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:31 2006