Locus 6714

Sequence ID 3L_DroMel_CAF1
Location 17,947,775 – 17,947,891
Length 116
Max. P 0.841708
window10923 window10924

overview

Window 3

Location 17,947,775 – 17,947,891
Length 116
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 83.82
Mean single sequence MFE -23.17
Consensus MFE -17.35
Energy contribution -17.13
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -2.05
Structure conservation index 0.75
SVM decision value 0.52
SVM RNA-class probability 0.767907
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17947775 116 + 23771897
AAAAAAAAACGCUCAAAAAAGGUGUUUCAUGCGCCCAUUCAAUAGCUAAAACACCUUGGUAACUCAACUAGAAGCCGAGUUACUAGAGUCAAUCAAAUAAUUGAAGUGCUUUGAUA
..........((((....(((((((((...((............))..)))))))))((((((((...........)))))))).))))..((((((..((....))..)))))). ( -26.30)
>DroSec_CAF1 70757 114 + 1
CAAACAAAACGGACU--AAAGGGGUUUCAUGCGCCCAUUCAAUAGCUAAAACACCUUGGUAACUCAACUAGAAGCCGAGUUGCUAGAGUCAAUCAAAUAAUUGAAGUGCUUUGAUA
....((((.((((((--...(((((.....)).)))...................((((((((((...........))))))))))))))..((((....))))..)).))))... ( -22.60)
>DroSim_CAF1 73050 94 + 1
CAAACAAAAC----------------------GCCCAUUCAAUAGCUAAAACACCUUGGUAACUCAACUAGAAGCCGAGUUGCUAGAGUCAAUCAAAUGAUUGAAGUGCUUUGAUA
..........----------------------......((((.(((.........((((((((((...........))))))))))..((((((....))))))...))))))).. ( -20.60)
>consensus
CAAACAAAACG__C___AAAGG_GUUUCAUGCGCCCAUUCAAUAGCUAAAACACCUUGGUAACUCAACUAGAAGCCGAGUUGCUAGAGUCAAUCAAAUAAUUGAAGUGCUUUGAUA
......................................((((.(((.........((((((((((...........))))))))))..(((((......)))))...))))))).. (-17.35 = -17.13 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 17,947,775 – 17,947,891
Length 116
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 83.82
Mean single sequence MFE -28.10
Consensus MFE -21.42
Energy contribution -21.20
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.19
Structure conservation index 0.76
SVM decision value 0.75
SVM RNA-class probability 0.841708
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17947775 116 - 23771897
UAUCAAAGCACUUCAAUUAUUUGAUUGACUCUAGUAACUCGGCUUCUAGUUGAGUUACCAAGGUGUUUUAGCUAUUGAAUGGGCGCAUGAAACACCUUUUUUGAGCGUUUUUUUUU
....(((((...((((((....))))))(((..((((((((((.....)))))))))).((((((((((((((........)))...)))))))))))....))).)))))..... ( -33.30)
>DroSec_CAF1 70757 114 - 1
UAUCAAAGCACUUCAAUUAUUUGAUUGACUCUAGCAACUCGGCUUCUAGUUGAGUUACCAAGGUGUUUUAGCUAUUGAAUGGGCGCAUGAAACCCCUUU--AGUCCGUUUUGUUUG
....((((((((((((((....)))))).......((((((((.....)))))))).....))))))))(((....((((((((....(......)...--.)))))))).))).. ( -26.80)
>DroSim_CAF1 73050 94 - 1
UAUCAAAGCACUUCAAUCAUUUGAUUGACUCUAGCAACUCGGCUUCUAGUUGAGUUACCAAGGUGUUUUAGCUAUUGAAUGGGC----------------------GUUUUGUUUG
...((((((.((((((((....))))))(..((((((((((((.....))))))))((....))......))))..)....)).----------------------)))))).... ( -24.20)
>consensus
UAUCAAAGCACUUCAAUUAUUUGAUUGACUCUAGCAACUCGGCUUCUAGUUGAGUUACCAAGGUGUUUUAGCUAUUGAAUGGGCGCAUGAAAC_CCUUU___G__CGUUUUGUUUG
....((((((((((((((....)))))).......((((((((.....)))))))).....)))))))).(((........)))................................ (-21.42 = -21.20 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:17 2006