Locus 3861

Sequence ID dm3.chr2R
Location 8,402,322 – 8,402,416
Length 94
Max. P 0.795177
window5289 window5290

overview

Window 9

Location 8,402,322 – 8,402,416
Length 94
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 80.71
Shannon entropy 0.33434
G+C content 0.55652
Mean single sequence MFE -33.76
Consensus MFE -20.65
Energy contribution -21.49
Covariance contribution 0.84
Combinations/Pair 1.05
Mean z-score -2.02
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.71
SVM RNA-class probability 0.795177
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 8402322 94 + 21146708
AACACUGGUUUUCCCAGUGUUUCAGCCAGGCCCCGGUUACUGCACUCAGCAAACUGUAGUGACGGGGCAGUCGUCACAACCGUAGUAUCGAGGC
((((((((.....))))))))...(((..((((((.((((((((..........))))))))))))))..(((..((.......))..)))))) ( -37.80, z-score =  -3.49, R)
>droSim1.chr2R 6874862 94 + 19596830
AACACUGGAUUUUCCAGUGUUACAGCCCGGCCCCGGUUACUGCCCUCUGCAAACUGUGGUGACGGGGCAGUCGUCAGAACCUUAUGAUCGCGGC
((((((((.....))))))))...(((..((((((.((((..(............)..)))))))))).((.((((........)))).))))) ( -37.90, z-score =  -2.49, R)
>droSec1.super_1 5948946 94 + 14215200
AACACUGGAUUUCCCAGUGUUACAGCCCGGCCCCGGUUACUGCCCUCUGCAAACUGUGGUGACGGGGCAGUCGUCAGAACCUUAUGAUUGCGGC
((((((((.....))))))))...(((..((((((.((((..(............)..)))))))))).((.((((........)))).))))) ( -37.30, z-score =  -2.23, R)
>droYak2.chr2R 12599093 87 - 21139217
AACACUGGAUUUUCCUGUGUUGUAACCCGGG-------ACUACCCUCCGCAAACCGUAGUGACGGGGCAGUCGUUAAAACCGUGGAAUCGCUGC
(((((.((.....)).)))))....((((..-------(((((............)))))..))))(((((.(((..........))).))))) ( -25.10, z-score =  -0.14, R)
>droEre2.scaffold_4845 5194623 87 - 22589142
AACACUGGAUUUUCCAGUGUUAUAACCCGGG-------ACCAUCCUCGGCAAACUAUGGUGACGGGGCAGUCGUCAGUACCGUAGGAUCGCGAC
((((((((.....)))))))).....(((((-------......)))))....((((((((((((.....)))))...)))))))......... ( -30.70, z-score =  -1.75, R)
>consensus
AACACUGGAUUUUCCAGUGUUACAGCCCGGCCCCGGUUACUGCCCUCUGCAAACUGUGGUGACGGGGCAGUCGUCAGAACCGUAGGAUCGCGGC
((((((((.....)))))))).......((........((((((((...((........))..))))))))........))............. (-20.65 = -21.49 +   0.84)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,402,322 – 8,402,416
Length 94
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 80.71
Shannon entropy 0.33434
G+C content 0.55652
Mean single sequence MFE -33.02
Consensus MFE -21.06
Energy contribution -22.06
Covariance contribution 1.00
Combinations/Pair 1.08
Mean z-score -1.72
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.650131
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 8402322 94 - 21146708
GCCUCGAUACUACGGUUGUGACGACUGCCCCGUCACUACAGUUUGCUGAGUGCAGUAACCGGGGCCUGGCUGAAACACUGGGAAAACCAGUGUU
((((((.(((.......))).)))..((((((.((((.(((....))))))).......))))))..)))...((((((((.....)))))))) ( -36.10, z-score =  -2.47, R)
>droSim1.chr2R 6874862 94 - 19596830
GCCGCGAUCAUAAGGUUCUGACGACUGCCCCGUCACCACAGUUUGCAGAGGGCAGUAACCGGGGCCGGGCUGUAACACUGGAAAAUCCAGUGUU
...(((..(....(((((((...((((((((..((........))..).)))))))...))))))).)..)))((((((((.....)))))))) ( -36.30, z-score =  -1.89, R)
>droSec1.super_1 5948946 94 - 14215200
GCCGCAAUCAUAAGGUUCUGACGACUGCCCCGUCACCACAGUUUGCAGAGGGCAGUAACCGGGGCCGGGCUGUAACACUGGGAAAUCCAGUGUU
...(((..(....(((((((...((((((((..((........))..).)))))))...))))))).)..)))((((((((.....)))))))) ( -36.10, z-score =  -1.65, R)
>droYak2.chr2R 12599093 87 + 21139217
GCAGCGAUUCCACGGUUUUAACGACUGCCCCGUCACUACGGUUUGCGGAGGGUAGU-------CCCGGGUUACAACACAGGAAAAUCCAGUGUU
.........((.(((.......(((((((((((.((....))..)))..)))))))-------))))))....(((((.((.....)).))))) ( -26.61, z-score =  -0.72, R)
>droEre2.scaffold_4845 5194623 87 + 22589142
GUCGCGAUCCUACGGUACUGACGACUGCCCCGUCACCAUAGUUUGCCGAGGAUGGU-------CCCGGGUUAUAACACUGGAAAAUCCAGUGUU
(..((.(((((.(((((.(((((.......)))))........)))))))))).))-------..).......((((((((.....)))))))) ( -30.00, z-score =  -1.86, R)
>consensus
GCCGCGAUCCUACGGUUCUGACGACUGCCCCGUCACCACAGUUUGCAGAGGGCAGUAACCGGGGCCGGGCUGUAACACUGGAAAAUCCAGUGUU
.............((((......((((((((((.((....))..)).).)))))))......)))).......((((((((.....)))))))) (-21.06 = -22.06 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:18:10 2011