Locus 550

Sequence ID dm3.chr2L
Location 3,909,592 – 3,909,695
Length 103
Max. P 0.997583
window735 window736

overview

Window 5

Location 3,909,592 – 3,909,695
Length 103
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 83.89
Shannon entropy 0.30578
G+C content 0.50603
Mean single sequence MFE -35.37
Consensus MFE -26.67
Energy contribution -28.02
Covariance contribution 1.35
Combinations/Pair 1.11
Mean z-score -2.14
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.57
SVM RNA-class probability 0.950804
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 3909592 103 + 23011544
UCCCACGACGUAUGCGGAAUAUGCGCUGGCAUACGGGGCGUAUGCGGAACGGA-----UAUCUUAUGCAUAACAACACAAAAGUCACGCAUACGCCGUGUGUACUUUG
..(((((.(((((.....))))))).))).(((((.((((((((((..((...-----........................))..)))))))))).)))))...... ( -33.73, z-score =  -1.46, R)
>droAna3.scaffold_12943 450499 87 - 5039921
-------------------AAUGAACCGGCAUAUGGGGCGUAUGCGCAACGUGGCGUGUGUUUUAUGCAUAACAAAACAAAAAUCACGCAUACGCCCCGUGUUCCA--
-------------------........((.(((((((((((((((((......))(((((((((.(.....).)))))).....)))))))))))))))))).)).-- ( -36.90, z-score =  -3.63, R)
>droEre2.scaffold_4929 3962059 103 + 26641161
ACCCACGGCGUAUGCGGAAUAUGCGCUGGCAUACGGGGCGUAUGCGGAACGGA-----UAUCUUAUGCAUAACAACACAAAAGUCACGCAUACGCCACGUGCACUUUG
.....(((((((((.....)))))))))((((....((((((((((..((...-----........................))..))))))))))..))))...... ( -35.93, z-score =  -2.15, R)
>droYak2.chr2L 3918237 103 + 22324452
UUCCACGGCGUAUGCGGAAUAUGCGCUGGCAUACGGGGCGUAUGCGGAACGGA-----UAUCUUAUGCAUAACAACACAAAAGUCACGCAUACGCCACGUGUACUUUG
.....(((((((((.....)))))))))..(((((.((((((((((..((...-----........................))..)))))))))).)))))...... ( -37.03, z-score =  -2.85, R)
>droSec1.super_5 2012600 103 + 5866729
UCCCACGACGUAUGCGGAAUAUGCGCUGGCAUACGGGGCGUAUGCGGAACGGA-----UAUCUUAUGCAUAACAACACAAAAGUCACGCAUACGCCGUGUGUACUUUG
..(((((.(((((.....))))))).))).(((((.((((((((((..((...-----........................))..)))))))))).)))))...... ( -33.73, z-score =  -1.46, R)
>droSim1.chr2L 3864263 103 + 22036055
UCCCACGACGUAUGCGGAAUAUGCGCUGGCAUACGGGGCGUAUGCGGAGCGGA-----UAUCUUAUGCAUAACAACACAAAAGUCACGCAUACGCCGUGUGUACAUUG
...((((.((((((((((((((.((((.(((((((...))))))).).))).)-----)))(((.((..........)).))))).)))))))).))))......... ( -34.90, z-score =  -1.30, R)
>consensus
UCCCACGACGUAUGCGGAAUAUGCGCUGGCAUACGGGGCGUAUGCGGAACGGA_____UAUCUUAUGCAUAACAACACAAAAGUCACGCAUACGCCGCGUGUACUUUG
..(((((.(((((.....))))))).))).(((((.((((((((((..((................................))..)))))))))).)))))...... (-26.67 = -28.02 +   1.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 3,909,592 – 3,909,695
Length 103
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 83.89
Shannon entropy 0.30578
G+C content 0.50603
Mean single sequence MFE -39.48
Consensus MFE -29.53
Energy contribution -30.18
Covariance contribution 0.65
Combinations/Pair 1.10
Mean z-score -3.28
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.13
SVM RNA-class probability 0.997583
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 3909592 103 - 23011544
CAAAGUACACACGGCGUAUGCGUGACUUUUGUGUUGUUAUGCAUAAGAUA-----UCCGUUCCGCAUACGCCCCGUAUGCCAGCGCAUAUUCCGCAUACGUCGUGGGA
.........(((((((((((((.((.((((((((......))))))))((-----(.((((..(((((((...))))))).)))).))).)))))))))))))))... ( -41.00, z-score =  -3.71, R)
>droAna3.scaffold_12943 450499 87 + 5039921
--UGGAACACGGGGCGUAUGCGUGAUUUUUGUUUUGUUAUGCAUAAAACACACGCCACGUUGCGCAUACGCCCCAUAUGCCGGUUCAUU-------------------
--.((.....((((((((((((..((...((((((((.....))))))))........))..)))))))))))).....))........------------------- ( -34.50, z-score =  -3.17, R)
>droEre2.scaffold_4929 3962059 103 - 26641161
CAAAGUGCACGUGGCGUAUGCGUGACUUUUGUGUUGUUAUGCAUAAGAUA-----UCCGUUCCGCAUACGCCCCGUAUGCCAGCGCAUAUUCCGCAUACGCCGUGGGU
.........(((((((((((((.((.((((((((......))))))))((-----(.((((..(((((((...))))))).)))).))).)))))))))))))))... ( -38.50, z-score =  -2.03, R)
>droYak2.chr2L 3918237 103 - 22324452
CAAAGUACACGUGGCGUAUGCGUGACUUUUGUGUUGUUAUGCAUAAGAUA-----UCCGUUCCGCAUACGCCCCGUAUGCCAGCGCAUAUUCCGCAUACGCCGUGGAA
.........(((((((((((((.((.((((((((......))))))))((-----(.((((..(((((((...))))))).)))).))).)))))))))))))))... ( -38.50, z-score =  -3.05, R)
>droSec1.super_5 2012600 103 - 5866729
CAAAGUACACACGGCGUAUGCGUGACUUUUGUGUUGUUAUGCAUAAGAUA-----UCCGUUCCGCAUACGCCCCGUAUGCCAGCGCAUAUUCCGCAUACGUCGUGGGA
.........(((((((((((((.((.((((((((......))))))))((-----(.((((..(((((((...))))))).)))).))).)))))))))))))))... ( -41.00, z-score =  -3.71, R)
>droSim1.chr2L 3864263 103 - 22036055
CAAUGUACACACGGCGUAUGCGUGACUUUUGUGUUGUUAUGCAUAAGAUA-----UCCGCUCCGCAUACGCCCCGUAUGCCAGCGCAUAUUCCGCAUACGUCGUGGGA
.........(((((((((((((.((.((((((((......))))))))((-----(.((((..(((((((...))))))).)))).))).)))))))))))))))... ( -43.40, z-score =  -3.98, R)
>consensus
CAAAGUACACACGGCGUAUGCGUGACUUUUGUGUUGUUAUGCAUAAGAUA_____UCCGUUCCGCAUACGCCCCGUAUGCCAGCGCAUAUUCCGCAUACGUCGUGGGA
............((((((((((..((((((((((......))))))))..........))..))))))))))..((((((....))))))(((((.......))))). (-29.53 = -30.18 +   0.65)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:14:54 2011