Locus 1612

Sequence ID X_DroMel_CAF1
Location 4,611,695 – 4,611,815
Length 120
Max. P 0.941118
window2637 window2638

overview

Window 7

Location 4,611,695 – 4,611,815
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -36.53
Consensus MFE -29.98
Energy contribution -30.48
Covariance contribution 0.50
Combinations/Pair 1.10
Mean z-score -3.15
Structure conservation index 0.82
SVM decision value 0.82
SVM RNA-class probability 0.859237
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4611695 120 + 22224390
AAUCUUUGACAUUCCGUGAAAAUACCUGGACGAAGAACUUGAGUCGAAUUCCUGUACGCUUAAAGCGCCCGGCAACUUUUCCGCAAGUUUUUCGCAUUUUCAUGGCAGUCAAUUUGCUAA
.....(((((...((((((((((.....(.(((((((((((.(..(((((.(((..(((.....)))..))).)).)))..).))))))))))))))))))))))..)))))........ ( -34.80)
>DroSec_CAF1 35776 120 + 1
AAUCUUUGACAUUCCGUGAAAAUACCUGGACGAAGAACUUGGGGCGAAUUCCUGUACGCUUAAAGCGUCCGGCAACUUUUCCGCAAGUUUUUCGCAUUUUCAUGGCAGUCAAUUUGCUAA
.....(((((...((((((((((.....(.(((((((((((.((.(((((.(((.((((.....)))).))).)).))).)).))))))))))))))))))))))..)))))........ ( -40.60)
>DroEre_CAF1 38670 120 + 1
AAUCUUUGAUAUUCCGUGAAAAUACCUGGACGAAGAACUUGAGGCGAAUUCCUGUACGCUUAAAGCGCCUGGCAACUUUUCUGCAAGUUUUCCGUAUUUUCAUGGCAGUCAAUUUGCUAA
.....(((((...((((((((((((..(((....((((((((((((.......(....)......)))))(....).......))))))))))))))))))))))..)))))........ ( -33.92)
>DroYak_CAF1 37878 120 + 1
AAUCUUUGAUAUGCCGUGAAAAUACCUGGACGAAGAACUUGAGUCGAAUUCCUGUACGCUUAAAGCGCCAGGCAACUUUUCCGCAAGUUUUCCGCAUUUUCAUGGCAGUCAAUUUGCUAA
.....(((((.((((((((((((...((((....(((((((.(..(((((((((..(((.....))).)))).)).)))..).))))))))))).)))))))))))))))))........ ( -36.80)
>consensus
AAUCUUUGACAUUCCGUGAAAAUACCUGGACGAAGAACUUGAGGCGAAUUCCUGUACGCUUAAAGCGCCCGGCAACUUUUCCGCAAGUUUUCCGCAUUUUCAUGGCAGUCAAUUUGCUAA
.....(((((...((((((((((.....(.(((((((((((.((.(((((.(((..(((.....)))..))).)).))).)).))))))))))))))))))))))..)))))........ (-29.98 = -30.48 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,611,695 – 4,611,815
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -34.25
Consensus MFE -31.70
Energy contribution -31.20
Covariance contribution -0.50
Combinations/Pair 1.14
Mean z-score -2.15
Structure conservation index 0.93
SVM decision value 1.31
SVM RNA-class probability 0.941118
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4611695 120 - 22224390
UUAGCAAAUUGACUGCCAUGAAAAUGCGAAAAACUUGCGGAAAAGUUGCCGGGCGCUUUAAGCGUACAGGAAUUCGACUCAAGUUCUUCGUCCAGGUAUUUUCACGGAAUGUCAAAGAUU
........(((((..((.((((((((((((.((((((.(....((((.((..((((.....))))...))))))...).)))))).)))))......))))))).))...)))))..... ( -33.60)
>DroSec_CAF1 35776 120 - 1
UUAGCAAAUUGACUGCCAUGAAAAUGCGAAAAACUUGCGGAAAAGUUGCCGGACGCUUUAAGCGUACAGGAAUUCGCCCCAAGUUCUUCGUCCAGGUAUUUUCACGGAAUGUCAAAGAUU
........(((((..((.((((((((((((.((((((.((...((((.((..((((.....))))...))))))..)).)))))).)))))......))))))).))...)))))..... ( -36.50)
>DroEre_CAF1 38670 120 - 1
UUAGCAAAUUGACUGCCAUGAAAAUACGGAAAACUUGCAGAAAAGUUGCCAGGCGCUUUAAGCGUACAGGAAUUCGCCUCAAGUUCUUCGUCCAGGUAUUUUCACGGAAUAUCAAAGAUU
........((((...((.((((((((((((.((((((.((...((((.((..((((.....))))...))))))...)))))))).....)))..))))))))).))....))))..... ( -29.80)
>DroYak_CAF1 37878 120 - 1
UUAGCAAAUUGACUGCCAUGAAAAUGCGGAAAACUUGCGGAAAAGUUGCCUGGCGCUUUAAGCGUACAGGAAUUCGACUCAAGUUCUUCGUCCAGGUAUUUUCACGGCAUAUCAAAGAUU
........((((.((((.((((((((((((.((((((.(....((((.((((((((.....)))).))))))))...).)))))).....)))..))))))))).))))..))))..... ( -37.10)
>consensus
UUAGCAAAUUGACUGCCAUGAAAAUGCGAAAAACUUGCGGAAAAGUUGCCGGGCGCUUUAAGCGUACAGGAAUUCGACUCAAGUUCUUCGUCCAGGUAUUUUCACGGAAUAUCAAAGAUU
........(((((..((.((((((((((((.((((((.((...((((.((..((((.....))))...))))))...)))))))).)))))......))))))).))...)))))..... (-31.70 = -31.20 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:39 2006