Locus 801

Sequence ID 3R_DroMel_CAF1
Location 2,722,028 – 2,722,138
Length 110
Max. P 0.945043
window1275 window1276

overview

Window 5

Location 2,722,028 – 2,722,138
Length 110
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 97.58
Mean single sequence MFE -14.90
Consensus MFE -13.63
Energy contribution -13.97
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.81
Structure conservation index 0.91
SVM decision value 1.35
SVM RNA-class probability 0.945043
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2722028 110 + 27905053
CAUUUGUAAUUUAGUUAUAAUUUUCUUUAUGCUUUCCGCUUUGCAGCCCUUUCACUGCAUUCUCCGUUCUCUUCUUUACACUAAAGUUUAAAUUUUAUUUACAACAAAUU
.((((((.....(((...(((((.(((((.((.....))..(((((........)))))......................)))))...)))))..)))....)))))). ( -11.70)
>DroSec_CAF1 32337 110 + 1
CAUUUGUAAUUUAGUUAUAAUUUUCUUUAUGCUUUCGGCUUUGCAGCCCUUUCGCUGCAUUCUCCGUUCUCUUCUUUACACUAAAGUUUAAAUUUUAUUUACAACAAAUU
.(((((...(((((((((((......)))))....(((...((((((......))))))....))).............))))))...)))))................. ( -17.40)
>DroSim_CAF1 33461 110 + 1
CAUUUGUAAUUUAGUUAUAAUUUUCUUUAUGCUUUCCGCUUUGCAGCUCAUUCGCUGCAUUCUCCGUUCUCUUCUUUACACUAAAGUUUAAAUUUUAUUUACAACAAAUU
.((((((.....(((...(((((.(((((.((.....))..((((((......))))))......................)))))...)))))..)))....)))))). ( -15.60)
>consensus
CAUUUGUAAUUUAGUUAUAAUUUUCUUUAUGCUUUCCGCUUUGCAGCCCUUUCGCUGCAUUCUCCGUUCUCUUCUUUACACUAAAGUUUAAAUUUUAUUUACAACAAAUU
.((((((.....(((...(((((.(((((.((.....))..((((((......))))))......................)))))...)))))..)))....)))))). (-13.63 = -13.97 +   0.33) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 2,722,028 – 2,722,138
Length 110
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 97.58
Mean single sequence MFE -18.63
Consensus MFE -17.49
Energy contribution -17.27
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.53
Structure conservation index 0.94
SVM decision value 1.32
SVM RNA-class probability 0.941837
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2722028 110 - 27905053
AAUUUGUUGUAAAUAAAAUUUAAACUUUAGUGUAAAGAAGAGAACGGAGAAUGCAGUGAAAGGGCUGCAAAGCGGAAAGCAUAAAGAAAAUUAUAACUAAAUUACAAAUG
((((((((((((............((((........))))...........((((((......))))))..((.....))..........))))))).)))))....... ( -16.00)
>DroSec_CAF1 32337 110 - 1
AAUUUGUUGUAAAUAAAAUUUAAACUUUAGUGUAAAGAAGAGAACGGAGAAUGCAGCGAAAGGGCUGCAAAGCCGAAAGCAUAAAGAAAAUUAUAACUAAAUUACAAAUG
((((((((((((............((((........))))....(((....((((((......))))))...)))...............))))))).)))))....... ( -21.10)
>DroSim_CAF1 33461 110 - 1
AAUUUGUUGUAAAUAAAAUUUAAACUUUAGUGUAAAGAAGAGAACGGAGAAUGCAGCGAAUGAGCUGCAAAGCGGAAAGCAUAAAGAAAAUUAUAACUAAAUUACAAAUG
((((((((((((............((((........))))...........((((((......))))))..((.....))..........))))))).)))))....... ( -18.80)
>consensus
AAUUUGUUGUAAAUAAAAUUUAAACUUUAGUGUAAAGAAGAGAACGGAGAAUGCAGCGAAAGGGCUGCAAAGCGGAAAGCAUAAAGAAAAUUAUAACUAAAUUACAAAUG
((((((((((((............((((........))))...........((((((......))))))..((.....))..........))))))).)))))....... (-17.49 = -17.27 +  -0.22) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:29 2006