Locus 3322

Sequence ID 3L_DroMel_CAF1
Location 9,730,705 – 9,730,795
Length 90
Max. P 0.700632
window5164

overview

Window 4

Location 9,730,705 – 9,730,795
Length 90
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 72.16
Mean single sequence MFE -21.01
Consensus MFE -12.05
Energy contribution -11.80
Covariance contribution -0.25
Combinations/Pair 1.22
Mean z-score -1.67
Structure conservation index 0.57
SVM decision value 0.35
SVM RNA-class probability 0.700632
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9730705 90 + 23771897
UGGCAGACAUUUCAAUGGAAAUCAGGAGCGUAGCUCAAAACCAAAAUGUAUGCUUAAA------------AA------------UAUAUCCUCAGAGAAAAAUUCUCUUUAAAA
.((((.((((((...(((.......((((...))))....))))))))).))))....------------..------------.........(((((.....)))))...... ( -16.90)
>DroSim_CAF1 26259 101 + 1
UGGCAAACAUUUCAAUGGAAAUCAGGAGCGUAGUUCGA-GCCAAAAUGUAUGCCGAAAAAUUGGUUUAAAAA------------UAUAUACUCAGACAAAAGUUCUUCUUAAAA
.((((.((((((...(((...((..((((...))))))-.))))))))).))))(((.((((.((((.....------------.........))))...)))).)))...... ( -17.74)
>DroEre_CAF1 25031 112 + 1
CGGCAGACAUUUCAUUGGAAAUCAGCAGCGUAGUUCAG-CCCAAAAUGUAUGCUGCAUAAUGGGCUUAAAAAGCUGCUUUAAAGUAUAUCCGCACA-AAAAAUUCAUUUUCAAA
(((...(((((((....))))).((((((....((.((-((((..((((.....))))..)))))).))...)))))).....))....)))....-................. ( -27.30)
>DroYak_CAF1 34950 112 + 1
UGGCAGACAUUUCAUUGGAAAACAGGAGCGUAGUUCAG-ACUAAAAUGUAUGCCGAAAAAUGGGUUUAAAAAUAUGGCUUAAAGUGUGUACGCACA-AAGAACUCUUUUUAAAA
.((((.((((((..(((((..((......))..)))))-....)))))).)))).(((((.((((((.........((.....))(((....))).-..))))))))))).... ( -22.10)
>consensus
UGGCAGACAUUUCAAUGGAAAUCAGGAGCGUAGUUCAA_ACCAAAAUGUAUGCCGAAAAAUGGGUUUAAAAA____________UAUAUACGCACA_AAAAAUUCUUUUUAAAA
(((((.((((((...(((.......((((...))))....))))))))).)))))........................................................... (-12.05 = -11.80 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:47 2006