Locus 3944

Sequence ID 2L_DroMel_CAF1
Location 11,498,049 – 11,498,169
Length 120
Max. P 0.655724
window6224

overview

Window 4

Location 11,498,049 – 11,498,169
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.28
Mean single sequence MFE -38.20
Consensus MFE -20.53
Energy contribution -20.82
Covariance contribution 0.28
Combinations/Pair 1.42
Mean z-score -1.86
Structure conservation index 0.54
SVM decision value 0.26
SVM RNA-class probability 0.655724
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11498049 120 + 22407834
CAGAAACUUCAAUCGCAGUUCGUUGUCACCGAAUGCCUGCAUCCGUCGAAGAUAGCCCACGAUUUGCAGGCACUUGGGUAGCUGGAGAUCCGUCCGCAGUUGUGCAACCAGCUGCACCAG
..............((((((.(((((..((((.((((((((...((((..(.....)..)))).)))))))).)))).((((((..((....))..)))))).))))).))))))..... ( -41.60)
>DroVir_CAF1 101710 120 + 1
UAAAAACUUCAAUUUUAACUCGUUGUCACCAAAAGCUUGCAUGCGCCGCAGAUAACCGACGAUUUGCAAGCACUUGGGCAGCUGCAGAUCCAUGCGCAUCUGUGCCACAAGCUGCACGAG
..................(((((.....((((..(((((((..((.((........)).))...)))))))..))))(((((((((......)))(((....)))....))))))))))) ( -38.60)
>DroGri_CAF1 146186 120 + 1
CAAAAACUUCAAUUUCAGCUCGUUGUCGCCAAAGGCCUGCAUGCGACGCAGAUAGCCGACAAUCUGCAGACACUUAGGCAGCUGCAGAUCCAUGCGCAACUGCGCCACAAGCUGCACAAG
...............(((((.(((((((((...)))((((.......))))......))))((((((((...(....)...))))))))....((((....)))).)).)))))...... ( -34.20)
>DroWil_CAF1 745 120 + 1
CAAGAAUUUCAGCUUCAGUUCAUUGUCUCCGAACGCCUGCAUGCGACGCAGGUAACCCACAAUCUGCAAACACUUGGGUAGUUGCAGGUCCAAACGUAGUUGCGCCACCAAUUGGACCAG
...........((....((((.........))))....)).((((((((((((........))))))....((....)).))))))(((((((..((.(.....).))...))))))).. ( -30.80)
>DroMoj_CAF1 95187 120 + 1
CAAAAACUUCAAUUUCAACUCGUUGUCGCCAAACGCCUGCAUGCGUCGCAAAUACCCCACAAUUUGCAAGCAUUUGGGUAACUGCAGAUCCAGGCGCAGCUGGGCCACUAGCUGCGCCAG
........................(((((.....(((((.((((...((((((........))))))..)))).)))))....)).)))...(((((((((((....))))))))))).. ( -40.60)
>DroAna_CAF1 54817 120 + 1
CAGGAACUUGAGACGCAGCUCGUUGUCCCCAAAAGCCUGCAUUCGUCUCAAAUAGCCCACGAUUUGCAGGCACUUUGGCAGCUGCAAGUCUGUGCGCAGUUGCGCCACCAACUGCACGAG
......((((.(.(((((((.((.((..(((((.(((((((.((((............))))..)))))))..)))))..)).)).)).))))))(((((((......))))))).)))) ( -43.40)
>consensus
CAAAAACUUCAAUUUCAGCUCGUUGUCACCAAAAGCCUGCAUGCGUCGCAGAUAGCCCACAAUUUGCAAGCACUUGGGCAGCUGCAGAUCCAUGCGCAGCUGCGCCACCAGCUGCACCAG
.....................((((.(.((((..(((((((.......................)))))))..))))))))).(((......)))(((((((......)))))))..... (-20.53 = -20.82 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:28 2006