Locus 1908

Sequence ID dm3.chr2L
Location 14,651,237 – 14,651,302
Length 65
Max. P 0.977928
window2629 window2630

overview

Window 9

Location 14,651,237 – 14,651,302
Length 65
Sequences 3
Columns 65
Reading direction forward
Mean pairwise identity 56.92
Shannon entropy 0.61890
G+C content 0.44848
Mean single sequence MFE -15.57
Consensus MFE -12.03
Energy contribution -11.27
Covariance contribution -0.77
Combinations/Pair 1.64
Mean z-score -0.97
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.98
SVM RNA-class probability 0.977928
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14651237 65 + 23011544
UCUCUGAGUUCCUUACCUUUGGUAGGGGGAAACUGCAGAGUCGAUUAAAGGCUCGAUUGACCAAA
..(((((((((((((((...))))))))...))).))))(((((((........))))))).... ( -19.70, z-score =  -1.28, R)
>droSec1.super_43 270810 65 - 327307
UCUCUGAGUUUUUUACUACUGGUGCGAAAAAACUGCAGAGAAUUUCGAAAAACAAAACAACCAAA
((((((((((((((..((....))..)))))))).))))))........................ ( -13.30, z-score =  -2.39, R)
>droAna3.scaffold_13770 628024 55 - 865660
AACCUGAGUCUCUUACCACAGG--GGGGAAAACGUCAGGGU--------GUCUCGAUGGACCAAG
..(((((((.(((..((...))--..)))..)).)))))(.--------((((....)))))... ( -13.70, z-score =   0.77, R)
>consensus
UCUCUGAGUUUCUUACCACUGGU_GGGGAAAACUGCAGAGU___U__AAGACUCGAUCGACCAAA
.(((((..(((((((((...)))))))))......)))))......................... (-12.03 = -11.27 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,651,237 – 14,651,302
Length 65
Sequences 3
Columns 65
Reading direction reverse
Mean pairwise identity 56.92
Shannon entropy 0.61890
G+C content 0.44848
Mean single sequence MFE -15.13
Consensus MFE -8.33
Energy contribution -8.00
Covariance contribution -0.33
Combinations/Pair 1.38
Mean z-score -1.26
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.57
SVM RNA-class probability 0.951300
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14651237 65 - 23011544
UUUGGUCAAUCGAGCCUUUAAUCGACUCUGCAGUUUCCCCCUACCAAAGGUAAGGAACUCAGAGA
.........((((........))))(((((.((((((..(((.....)))...))))))))))). ( -17.90, z-score =  -1.92, R)
>droSec1.super_43 270810 65 + 327307
UUUGGUUGUUUUGUUUUUCGAAAUUCUCUGCAGUUUUUUCGCACCAGUAGUAAAAAACUCAGAGA
.......((((((.....))))))((((((.((((((((.((.......)))))))))))))))) ( -15.10, z-score =  -2.19, R)
>droAna3.scaffold_13770 628024 55 + 865660
CUUGGUCCAUCGAGAC--------ACCCUGACGUUUUCCCC--CCUGUGGUAAGAGACUCAGGUU
(((((....)))))..--------..(((((.(((((...(--(....))...)))))))))).. ( -12.40, z-score =   0.35, R)
>consensus
UUUGGUCAAUCGAGACUU__A___ACUCUGCAGUUUUCCCC_ACCAGUGGUAAGAAACUCAGAGA
.........................(((((.((((((..((.......))...))))))))))). ( -8.33 =  -8.00 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:41:10 2011