Locus 1192

Sequence ID 3R_DroMel_CAF1
Location 3,592,953 – 3,593,052
Length 99
Max. P 0.731129
window1954

overview

Window 4

Location 3,592,953 – 3,593,052
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.26
Mean single sequence MFE -22.42
Consensus MFE -9.41
Energy contribution -9.75
Covariance contribution 0.34
Combinations/Pair 1.20
Mean z-score -2.43
Structure conservation index 0.42
SVM decision value 0.42
SVM RNA-class probability 0.731129
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3592953 99 + 27905053
AUUUGAACUUGCAUUCUCAGCCGUUUUGCAGGCAACUCAAACA--------GAAUGUCGGAAAAUAUUCCAA---CAA---------UUUGCUGAAC-AUGUGAAAUUUAAAAAACUCCU
.((((((.(..(((..(((((.((((.(.((....)))))))(--------((.(((.((((....)))).)---)).---------))))))))..-)))..)..))))))........ ( -22.00)
>DroSec_CAF1 43200 99 + 1
AUUUGAACUUGCAUUCUCAGCCGUUUUGCAGGCAACUCAAACA--------GAAUGCCGGAAAAUAUUCCAA---CAU---------UUUGCUGAAC-AUGUGAAAUUUAAAAAACUCCU
.((((((.(..(((..(((((.((((.(.((....)))))))(--------(((((..((((....))))..---)))---------))))))))..-)))..)..))))))........ ( -23.10)
>DroSim_CAF1 44054 99 + 1
AUUUGAACUUGCAUUCUCAGCCGUUUUGCAGGCAACUCAAACA--------GAAUGCCGGAAAAUAUUCCAA---CAU---------UUUGCUGAAC-AUGUGAAAUUUAAAAAACUCCU
.((((((.(..(((..(((((.((((.(.((....)))))))(--------(((((..((((....))))..---)))---------))))))))..-)))..)..))))))........ ( -23.10)
>DroEre_CAF1 49787 100 + 1
AUUUGAACUUGCCAUUUCAGCCGU-UUGCAGGCAACUCAAACA--------GAAUGCCUGAAAAUACUCCAAAAACAU---------UUUGCUGAAC-AUGGGAAAUU-UAAAAACUCCU
.((((((.((.((((((((((.((-(((.((....)))))))(--------(((((...................)))---------))))))))).-)))).)).))-))))....... ( -25.01)
>DroYak_CAF1 66838 110 + 1
AUUCGAACUUGCAUUCUCAGCCGUUUUGCAGGCAACUCAAACA--------GAAUGCCUGAAAAUAUUCCAAAAACAUUUUCAGCAUUUUGCUGAAC-AUGGCGACUU-AAAAAACUCCU
........(((((((.((((.(((((((.((....))....))--------))))).)))).)))..........(((.((((((.....)))))).-)))))))...-........... ( -25.80)
>DroAna_CAF1 38889 110 + 1
AGCCGAAGUUGCAUUCUCAGCCAUUUUGUUAGCAAGUCAAACAUUUUAAAAGCAUUUUUGGACAAAAGCGAAAAAC-U---------CUUGCUGGACGAUGGAAUAUUUUUACUAUCCCA
.(((((((.(((.............(((....)))(.....).........))).)))))).)...(((((.....-.---------.)))))((..(((((((.....)).))))))). ( -15.50)
>consensus
AUUUGAACUUGCAUUCUCAGCCGUUUUGCAGGCAACUCAAACA________GAAUGCCGGAAAAUAUUCCAA___CAU_________UUUGCUGAAC_AUGGGAAAUUUAAAAAACUCCU
........(..(((..(((((...((((.((....))))))..........(((((........))))).....................)))))...)))..)................ ( -9.41 =  -9.75 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:18 2006