Locus 3414

Sequence ID 2R_DroMel_CAF1
Location 11,552,705 – 11,552,810
Length 105
Max. P 0.556017
window5570

overview

Window 0

Location 11,552,705 – 11,552,810
Length 105
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 78.11
Mean single sequence MFE -25.36
Consensus MFE -19.15
Energy contribution -19.48
Covariance contribution 0.34
Combinations/Pair 1.17
Mean z-score -0.91
Structure conservation index 0.75
SVM decision value 0.04
SVM RNA-class probability 0.556017
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11552705 105 + 20766785
UA-----AUCCACGAAACC------UG-GUUCCC--CGGCGGUGCUCCAUUUGUUGGCUACUGCGUGUUUAGCAAUUUGUGGUUAUAUUAUAAUGACCACUUGAUUUGCGUUUGCGUCG
..-----....(((((((.------((-(....)--))((((((..(((.....))).)))))).......((((...((((((((......)))))))).....)))))))).))).. ( -27.40)
>DroPse_CAF1 12326 111 + 1
AUACCUAAUGCCCAAUACCAACCGCUGAGCUCCUUGCCACGAUUUUCCAUU---UGUACAUUGCGUGUUUAGCAAUUUGCGGUUAUAAUAUAAUGACCACUUGAUUUGCUUUUG-----
((((.(((((..(((.......((.((.((.....)))))).........)---))..))))).))))..(((((...(.((((((......)))))).).....)))))....----- ( -19.49)
>DroSim_CAF1 13013 105 + 1
AA-----AUCCACGAAACC------UG-GUUCCC--CGGCGGUGCUCCAUUUGUUGGCCACUGCGUGUUUAGCAAUUUGUGGUUAUAUUAUAAUGACCACUUGAUUUGCGUUUGCGUCG
..-----....(((((((.------((-(....)--))((((((..(((.....))).)))))).......((((...((((((((......)))))))).....)))))))).))).. ( -29.30)
>DroEre_CAF1 13084 101 + 1
-A-----AUCCACGAAACC------UG-GUUCCC--CGGCGGUGUUCCAUU---UGGCCACUGCGUGUUUAGCAAUUUGUGGUUGUAUUAUAAUGACCACUUGAUUUGCGUUUGCGUCG
-.-----....(((((((.------((-(....)--))((((((..((...---.)).)))))).......((((...(((((..(......)..))))).....)))))))).))).. ( -27.00)
>DroYak_CAF1 13086 102 + 1
UU-----AUCCACGAAACC------UG-GUUCCC--CGGCGGUGUUCCAUU---UGGCCACUGCGUGUUUAGCAAUUUGUGGUUAUAUUAUAAUGACCACUUGAUUUGCGUUUGCGUCG
.(-----(..(((......------((-(....)--))((((((..((...---.)).)))))))))..))((((...((((((((......)))))))).....)))).......... ( -28.40)
>DroAna_CAF1 10449 84 + 1
------------------------------UUAC--CUGCCAUGUUCCAUU---UGGCCAUUGCGUGCUUAGCAAUUUGCGGUUAUAUUAUAAUGACCACUUGAUUUGCGUUUGCGCUG
------------------------------....--..((.(((..((...---.)).))).))((((...((((...(.((((((......)))))).).....))))....)))).. ( -20.60)
>consensus
_A_____AUCCACGAAACC______UG_GUUCCC__CGGCGGUGUUCCAUU___UGGCCACUGCGUGUUUAGCAAUUUGUGGUUAUAUUAUAAUGACCACUUGAUUUGCGUUUGCGUCG
......................................((((((..(((.....))).))))))..((...((((...((((((((......)))))))).....))))....)).... (-19.15 = -19.48 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:52 2006