Locus 5790

Sequence ID 2R_DroMel_CAF1
Location 18,347,320 – 18,347,413
Length 93
Max. P 0.996334
window9271 window9272

overview

Window 1

Location 18,347,320 – 18,347,413
Length 93
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 76.80
Mean single sequence MFE -21.51
Consensus MFE -12.61
Energy contribution -12.83
Covariance contribution 0.22
Combinations/Pair 1.05
Mean z-score -1.90
Structure conservation index 0.59
SVM decision value 0.42
SVM RNA-class probability 0.728589
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18347320 93 + 20766785
UGUGAUAAAAAAAAUUGGCAAUGCCCACAGUAUCACUAAAUGGUA-------------------CACACCUUUAUGGUUUCUUU-GGAACAAAAAUUUAAGGCGCGACCUAUA
.((((((.........(((...))).....)))))).....(((.-------------------(.(.((((.((.((((....-.))))....))..)))).).)))).... ( -16.34)
>DroSim_CAF1 31341 91 + 1
UGUGAUAAAAAAA--UGGCAAUGGCCACAGUAUCACUAAAUGGUA-------------------CACACCUUUACGGUUUGUCU-UGAACAAAAAUUUAAGGCGUGACCUAUA
.((((((......--((((....))))...)))))).....(((.-------------------(((.((((.....(((((..-...))))).....)))).)))))).... ( -25.60)
>DroEre_CAF1 33137 110 + 1
UGUGAUAAUA---AUUGGCAAUGCCCACAGUAUCACUAAAUGAUUCGGAAAUGACAUUCAUUGCCACACCUUUAUGUUUUCUCUUGGAACAACAAUUUAAGGCGUGACCCAUA
.((((((...---...(((...))).....))))))...(((..((((.((((.....)))).))((.((((..(((((((.....))).))))....)))).))))..))). ( -22.60)
>consensus
UGUGAUAAAAAAAAUUGGCAAUGCCCACAGUAUCACUAAAUGGUA___________________CACACCUUUAUGGUUUCUCU_GGAACAAAAAUUUAAGGCGUGACCUAUA
.((((((........(((......)))...))))))............................(((.((((....(((((....)))))........)))).)))....... (-12.61 = -12.83 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,347,320 – 18,347,413
Length 93
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 76.80
Mean single sequence MFE -27.38
Consensus MFE -15.58
Energy contribution -15.25
Covariance contribution -0.33
Combinations/Pair 1.12
Mean z-score -3.10
Structure conservation index 0.57
SVM decision value 2.68
SVM RNA-class probability 0.996334
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18347320 93 - 20766785
UAUAGGUCGCGCCUUAAAUUUUUGUUCC-AAAGAAACCAUAAAGGUGUG-------------------UACCAUUUAGUGAUACUGUGGGCAUUGCCAAUUUUUUUUAUCACA
....(((((((((((...(((((.....-..))))).....))))))))-------------------.))).....((((((.....(((...))).........)))))). ( -22.14)
>DroSim_CAF1 31341 91 - 1
UAUAGGUCACGCCUUAAAUUUUUGUUCA-AGACAAACCGUAAAGGUGUG-------------------UACCAUUUAGUGAUACUGUGGCCAUUGCCA--UUUUUUUAUCACA
....(((((((((((.....((((((..-.)))))).....))))))))-------------------.))).....((((((..(((((....))))--).....)))))). ( -29.80)
>DroEre_CAF1 33137 110 - 1
UAUGGGUCACGCCUUAAAUUGUUGUUCCAAGAGAAAACAUAAAGGUGUGGCAAUGAAUGUCAUUUCCGAAUCAUUUAGUGAUACUGUGGGCAUUGCCAAU---UAUUAUCACA
..(((((((((((((....((((.(((.....)))))))..))))))))))((((.....)))).))).........((((((.((..(((...)))...---)).)))))). ( -30.20)
>consensus
UAUAGGUCACGCCUUAAAUUUUUGUUCC_AGAGAAACCAUAAAGGUGUG___________________UACCAUUUAGUGAUACUGUGGGCAUUGCCAAUUUUUUUUAUCACA
....(((((((((((.....(((.((....)).))).....))))))))....................))).....((((((...(((......)))........)))))). (-15.58 = -15.25 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:25 2006