Locus 4546

Sequence ID 3R_DroMel_CAF1
Location 12,048,321 – 12,048,411
Length 90
Max. P 0.817328
window7422 window7423

overview

Window 2

Location 12,048,321 – 12,048,411
Length 90
Sequences 3
Columns 90
Reading direction forward
Mean pairwise identity 98.52
Mean single sequence MFE -25.47
Consensus MFE -23.87
Energy contribution -23.87
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.94
SVM decision value 0.67
SVM RNA-class probability 0.817328
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12048321 90 + 27905053
UGGAUAAGCCUCGAAAACAAAAUCAUCAAAGCGAGCACUCAACCCCCAGCUAGCCAGCUGAACGAAAGAAGCGGGCUGCAUGGGAUGAGA
.......((.(((..................))))).((((...((((((.((((.(((...(....).))).)))))).)))).)))). ( -27.27)
>DroSim_CAF1 19523 90 + 1
UGGAUAAGCCUCGAAAACAAAAUCAUCAAAGCGAGCACUCAACCCCCAGCUAGCCAGCUGAACGAAAGAAGCGGGCUGCAUGGGAUGCGA
.......((((((..................)))).........((((((.((((.(((...(....).))).)))))).))))..)).. ( -24.57)
>DroYak_CAF1 19215 90 + 1
UGGAUAAGCCUCGAAAACAAAAUCAUCAAAGCGAGCAGUCAACCCCCAGCUAGCCAGCUGAACGAAAGAAGCGGGCUGCAUGGGAUGCGA
.......((((((..................)))).........((((((.((((.(((...(....).))).)))))).))))..)).. ( -24.57)
>consensus
UGGAUAAGCCUCGAAAACAAAAUCAUCAAAGCGAGCACUCAACCCCCAGCUAGCCAGCUGAACGAAAGAAGCGGGCUGCAUGGGAUGCGA
.......((.(((..................)))))........((((((.((((.(((...(....).))).)))))).))))...... (-23.87 = -23.87 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 12,048,321 – 12,048,411
Length 90
Sequences 3
Columns 90
Reading direction reverse
Mean pairwise identity 98.52
Mean single sequence MFE -28.00
Consensus MFE -26.43
Energy contribution -26.43
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.94
SVM decision value 0.16
SVM RNA-class probability 0.610502
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12048321 90 - 27905053
UCUCAUCCCAUGCAGCCCGCUUCUUUCGUUCAGCUGGCUAGCUGGGGGUUGAGUGCUCGCUUUGAUGAUUUUGUUUUCGAGGCUUAUCCA
.((((.(((..((((((.(((..........))).)))).))...))).)))).....(((((((.(((...))).)))))))....... ( -29.10)
>DroSim_CAF1 19523 90 - 1
UCGCAUCCCAUGCAGCCCGCUUCUUUCGUUCAGCUGGCUAGCUGGGGGUUGAGUGCUCGCUUUGAUGAUUUUGUUUUCGAGGCUUAUCCA
......((((.((((((.(((..........))).)))).))))))((.(((((.((((....(((......)))..))))))))).)). ( -28.10)
>DroYak_CAF1 19215 90 - 1
UCGCAUCCCAUGCAGCCCGCUUCUUUCGUUCAGCUGGCUAGCUGGGGGUUGACUGCUCGCUUUGAUGAUUUUGUUUUCGAGGCUUAUCCA
(((..(((((.((((((.(((..........))).)))).)))))))..)))......(((((((.(((...))).)))))))....... ( -26.80)
>consensus
UCGCAUCCCAUGCAGCCCGCUUCUUUCGUUCAGCUGGCUAGCUGGGGGUUGAGUGCUCGCUUUGAUGAUUUUGUUUUCGAGGCUUAUCCA
((...(((((.((((((.(((..........))).)))).)))))))...))......(((((((.(((...))).)))))))....... (-26.43 = -26.43 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:58 2006