Locus 4126

Sequence ID 3L_DroMel_CAF1
Location 12,043,477 – 12,043,597
Length 120
Max. P 0.500000
window6414

overview

Window 4

Location 12,043,477 – 12,043,597
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.39
Mean single sequence MFE -47.48
Consensus MFE -30.29
Energy contribution -31.77
Covariance contribution 1.48
Combinations/Pair 1.28
Mean z-score -1.47
Structure conservation index 0.64
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12043477 120 + 23771897
AAACCACCGCCGCACUGGGCACUGCACUCACUCCACUCGCCCCACGGUCCCCAUCCGCCAUCCACGGACUGCGGCUUGGCCACCGGGCACGGUGGCAAGUGGCGGCAGUACAUCUCCGAC
...((((.((((((.((((.((((....................)))).))))((((.......)))).))))))...(((((((....)))))))..))))(((.((.....))))).. ( -46.25)
>DroVir_CAF1 1400 120 + 1
AAGCCGCCACCACAUUGGGCGCUGCACUCGCUCCACUCGCCCCAGGGACCCCAGGCGCCGUCAACGGGCGGCGGCUUGGCCACGGGACACGGCGGCAGGUGGCUGCAGUACAUCUCGGCA
..((((((.........)))((((((......((((..(((((..(..((((((((((((((....)))))).))))))....))..)..)).)))..)))).)))))).......))). ( -55.90)
>DroPse_CAF1 1431 120 + 1
AAACCUCCACCGCACUGGGCACUGCACUCGCUCCACUCGCCCCAAGGUCCCCAGCCACCGUCCACCGAUGGUGGCUUGGGCACAGGACAGGGCGGCAAGUGACGGCAAUACAUCUCCGAU
.........(((((((..((...((....))......(((((....(((((.((((((((((....)))))))))).))).))......))))))).)))).)))............... ( -47.00)
>DroGri_CAF1 1659 120 + 1
AAUCCACCGCCACACUGAGCGCUGCACUCGCUCCACUCACCCCACGGUCCCCAGCCUCCAUCGAUGGCCGUUGGCUUGGCCACCGGACAGGGCGGCAGAUGGCUGCAAUACAUCUCGGCA
........(((....((((.(..((....))..).)))).....(((((..(.(((.((.(((.((((((......)))))).)))....)).))).)..)))))...........))). ( -37.50)
>DroWil_CAF1 1440 120 + 1
AAACCACCUCCACACUGAGCGCUGCAUUCACUCCACUCUCCCCAAGGACCCCAACCGCCGUCAAUCGAUGGUGGUUUGGCCACCGGACACGGAGGCAAGUGCCGGCAAUACAUUUCCGCC
.......(((......))).((((((((..((((....(((....((.((..((((((((((....)))))))))).))))...)))...))))...)))).)))).............. ( -36.60)
>DroMoj_CAF1 1381 120 + 1
AAGCCGCCUCCACACUGCGCGCUGCACUCGCUCCACUCGCCCCAGGGCCCCCAGCCGCCGUCAAUGGGCGUCGGCUUGGCCACGGGGCAGGGCGGCAAGUGGGUGCAGUACAUCUCCGCC
..((.(((........).))((((((((((((((.((((((((..((((...(((((.((((....)))).))))).))))..))))).))).))..))))))))))))........)). ( -61.60)
>consensus
AAACCACCACCACACUGGGCGCUGCACUCGCUCCACUCGCCCCAAGGUCCCCAGCCGCCGUCAACGGACGGCGGCUUGGCCACCGGACACGGCGGCAAGUGGCGGCAAUACAUCUCCGCC
......................(((.......(((((.(((((...((((((((((((((((....))))))))).))).....))))..)).))).)))))..)))............. (-30.29 = -31.77 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:03 2006