Locus 1838

Sequence ID X_DroMel_CAF1
Location 5,078,596 – 5,078,702
Length 106
Max. P 0.743455
window2991

overview

Window 1

Location 5,078,596 – 5,078,702
Length 106
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 80.46
Mean single sequence MFE -27.18
Consensus MFE -17.43
Energy contribution -17.65
Covariance contribution 0.22
Combinations/Pair 1.05
Mean z-score -1.80
Structure conservation index 0.64
SVM decision value 0.46
SVM RNA-class probability 0.743455
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5078596 106 + 22224390
CCCAAUCAA-------------AUUGUGAGAGGACAGCAAAAGUUACUUGACUAAUUCCCCGCAGUUGUUCUGUUUCUCGUUUCUCACGUGGCAGCUGCUGGAUCACGUCCUCUUCAAU
.........-------------((((.((((((((......((((....)))).....((.((((((((..(((............)))..)))))))).)).....)))))))))))) ( -31.70)
>DroVir_CAF1 54219 99 + 1
CUGA--------------------UAACUAAGGACAGCAUAAGUUACUUGACUAAUUCCCCGCAGUUGUUCUGUUUCUCGUUUCUCACGUGGCAGCUGCUCGAUCACGUGCUCUUCAAU
....--------------------.......(((.(((((.((((....))))........((((((((..(((............)))..))))))))........))))).)))... ( -22.00)
>DroGri_CAF1 23113 99 + 1
GCGA--------------------UAAUUGAGGACAGCAUAAGUUACUUGACUAAUUUGUCGCAGUUGUUCUGUUUCUCGUUUCUCACGUGGCAGCUGCUCGAUCAUGUGCUCUUCAAU
....--------------------..((((((((..(((((........(((......)))((((((((..(((............)))..)))))))).......))))))))))))) ( -28.00)
>DroWil_CAF1 17224 119 + 1
CCCAACCAACCAACGAGUCUCUUUUGCCCGAGGACAGCAUUUGUUACUUGACUAAUUUCUUGCAGUUGUUCUGUUUCUCGUUUCUCACGUGGCAGCUGCUCGAUCAUGUUCUUUUCAAU
.............((((((.(((......)))))).(((.(((((((.(((..(((.....((((.....)))).....)))..))).))))))).))))))................. ( -23.90)
>DroMoj_CAF1 43192 99 + 1
ACCG--------------------UAACUGAGGACAGCAUAAGUUACUUGACUAAUUUGUCGCAGUUGUUCUGUUUCUCGUUUCUCACGUGGCAGCUGCUCGACCACGUGCUGUUCAAU
....--------------------.......(((((((((..(((....(((......)))((((((((..(((............)))..))))))))..)))...)))))))))... ( -30.40)
>DroAna_CAF1 15962 101 + 1
UCCAAC-----------------CUGCUCGAGGACAGCCA-CGUUACUUGACUAAUUCCCCGCAGUUGUUCUGUUUCUCGUUUCUCACGUGGCAGCUGCUGGACCACGUCCUCUUCAAC
......-----------------......((((((.....-.(((....)))......((.((((((((..(((............)))..)))))))).)).....))))))...... ( -27.10)
>consensus
CCCA____________________UAACUGAGGACAGCAUAAGUUACUUGACUAAUUCCCCGCAGUUGUUCUGUUUCUCGUUUCUCACGUGGCAGCUGCUCGAUCACGUGCUCUUCAAU
.............................(((((..((....(((....))).........((((((((..(((............)))..))))))))........))..)))))... (-17.43 = -17.65 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:57 2006