Locus 6279

Sequence ID 3R_DroMel_CAF1
Location 16,389,703 – 16,389,823
Length 120
Max. P 0.911180
window10239 window10240

overview

Window 9

Location 16,389,703 – 16,389,823
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.28
Mean single sequence MFE -41.11
Consensus MFE -39.95
Energy contribution -39.84
Covariance contribution -0.11
Combinations/Pair 1.03
Mean z-score -2.03
Structure conservation index 0.97
SVM decision value 1.08
SVM RNA-class probability 0.911180
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16389703 120 + 27905053
GUUGCUACUUGUGGGUCAACUAAUCUGUCGCCAGUACACAUGUGUAUGUUGUGUGUGGAAAGUUUUGCGGGCCGACUUGAUCCGCGGCCACUUUUAUCGUCACUGAAAGUGGCCCUCCAU
..........(((((((((.......((((((...(((((.........)))))(..((....))..).)).)))))))))))))(((((((((((.......)))))))))))...... ( -40.41)
>DroSec_CAF1 10837 120 + 1
GUUGCUACUUGUGGGUCAACUAAUCUGUCGCCAGUACACAUAUGUAUGAUGUGUGUGGAAAGUUUUGCGGGCCGACUUGAUCCGCGGCCACUUUUAUCGUCACUGAAAGUGGCCCUCCAU
..........(((((((((.......((((((..(((((((((.....)))))))))....(.....).)).)))))))))))))(((((((((((.......)))))))))))...... ( -42.31)
>DroEre_CAF1 11377 116 + 1
GUUGCUACUUGUGGGUCAACUAAUCUGUCGGCAGUACACAU----AUGAUGUGUGUGGAAAGUUUUGCGGUCCGACUUGAUCCGCGGCCACUUUUAUCGUCACUGAAAGUGGCCCUCCGU
..........(((((((((.......((((((...((((((----...))))))(..((....))..).).))))))))))))))(((((((((((.......)))))))))))...... ( -40.61)
>consensus
GUUGCUACUUGUGGGUCAACUAAUCUGUCGCCAGUACACAU_UGUAUGAUGUGUGUGGAAAGUUUUGCGGGCCGACUUGAUCCGCGGCCACUUUUAUCGUCACUGAAAGUGGCCCUCCAU
..........(((((((((.......((((((...((((((.......))))))(..((....))..).)).)))))))))))))(((((((((((.......)))))))))))...... (-39.95 = -39.84 +  -0.11)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 16,389,703 – 16,389,823
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.28
Mean single sequence MFE -35.20
Consensus MFE -33.53
Energy contribution -33.87
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.95
SVM decision value 0.55
SVM RNA-class probability 0.779957
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16389703 120 - 27905053
AUGGAGGGCCACUUUCAGUGACGAUAAAAGUGGCCGCGGAUCAAGUCGGCCCGCAAAACUUUCCACACACAACAUACACAUGUGUACUGGCGACAGAUUAGUUGACCCACAAGUAGCAAC
.((((((((((((((...........)))))))))((((..(.....)..))))......)))))....((((.((((....))))(((....)))....))))................ ( -36.70)
>DroSec_CAF1 10837 120 - 1
AUGGAGGGCCACUUUCAGUGACGAUAAAAGUGGCCGCGGAUCAAGUCGGCCCGCAAAACUUUCCACACACAUCAUACAUAUGUGUACUGGCGACAGAUUAGUUGACCCACAAGUAGCAAC
.((((((((((((((...........)))))))))((((..(.....)..))))......))))).((((((.......)))))).(((....))).(((.(((.....))).))).... ( -36.20)
>DroEre_CAF1 11377 116 - 1
ACGGAGGGCCACUUUCAGUGACGAUAAAAGUGGCCGCGGAUCAAGUCGGACCGCAAAACUUUCCACACACAUCAU----AUGUGUACUGCCGACAGAUUAGUUGACCCACAAGUAGCAAC
..(((((((((((((...........)))))))))((((.((......))))))......))))..((((((...----))))))..(((((((......))))((......)).))).. ( -32.70)
>consensus
AUGGAGGGCCACUUUCAGUGACGAUAAAAGUGGCCGCGGAUCAAGUCGGCCCGCAAAACUUUCCACACACAUCAUACA_AUGUGUACUGGCGACAGAUUAGUUGACCCACAAGUAGCAAC
..(((((((((((((...........)))))))))((((..(.....)..))))......))))..((((((.......)))))).(((....))).(((.(((.....))).))).... (-33.53 = -33.87 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:29 2006