Locus 3740

Sequence ID 2L_DroMel_CAF1
Location 10,887,906 – 10,887,996
Length 90
Max. P 0.875001
window5890

overview

Window 0

Location 10,887,906 – 10,887,996
Length 90
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 71.40
Mean single sequence MFE -31.14
Consensus MFE -12.32
Energy contribution -15.17
Covariance contribution 2.85
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.40
SVM decision value 0.89
SVM RNA-class probability 0.875001
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10887906 90 + 22407834
CACUUAACGAUAG-AGUCAGCAGAGU--GUAGCUGCUGCCGCAGCGGAUGCUGUUUCCGCGA------CGGCAGUGGCAACAUUGCGUAUACGCAAUUA
(((((..((((..-.))).)..))))--)..((..((((((..(((((.......)))))..------))))))..))...((((((....)))))).. ( -38.80)
>DroSec_CAF1 27525 90 + 1
CACUUAACGAUAG-AGUCAGCAGAGU--GUAGCUGCUGCCGCAGAGGAAGCUGUUUCCGCGA------CGGCAGUGGCAACAGUGCGUAUACGCAAUUA
(((((..((((..-.))).)..))))--)..((..((((((..(.(((((...))))).)..------))))))..)).....((((....)))).... ( -31.80)
>DroSim_CAF1 27920 90 + 1
CACUUAACGAUAG-AGUCAGCAGAGU--GUAGCUGCUGCCGCAGAGGAAGCUGUUUCCGCGA------CGGCAGUGGCAACAGUGCGUAUACGCAAUUA
(((((..((((..-.))).)..))))--)..((..((((((..(.(((((...))))).)..------))))))..)).....((((....)))).... ( -31.80)
>DroAna_CAF1 29543 89 + 1
CACUCACCGAUAGGAGCCAGCAGAGGAAGUGGCGGC---------GGACACGCUUUGUGCUCUUAAUG-UGUGGUGGCAACAGUGCGUAUACGCAAUUU
(((.(((((.(((((((..((((((...(((.....---------...))).))))))))))))).))-.)))))).......((((....)))).... ( -30.00)
>DroPer_CAF1 30893 75 + 1
CCCGUAACGGAAG-GGCCAGCGGAGU--GUGUCUGCUGC---------------UCCUGUCA------CCGCAUUGGCAACUGCUCGUAUACGCAAUUU
..(((((((((((-(..(((((((..--...))))))).---------------.))).)).------..(((..(....)))).))).))))...... ( -23.30)
>consensus
CACUUAACGAUAG_AGUCAGCAGAGU__GUAGCUGCUGCCGCAG_GGAAGCUGUUUCCGCGA______CGGCAGUGGCAACAGUGCGUAUACGCAAUUA
............................((.((((((((((........((.......))........)))))))))).))..((((....)))).... (-12.32 = -15.17 +   2.85)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:52 2006