Locus 4621

Sequence ID dm3.chr2R
Location 14,634,806 – 14,634,898
Length 92
Max. P 0.682460
window6339 window6340

overview

Window 9

Location 14,634,806 – 14,634,898
Length 92
Sequences 7
Columns 99
Reading direction forward
Mean pairwise identity 90.78
Shannon entropy 0.17880
G+C content 0.60409
Mean single sequence MFE -35.66
Consensus MFE -28.10
Energy contribution -29.71
Covariance contribution 1.61
Combinations/Pair 1.07
Mean z-score -1.67
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.08
SVM RNA-class probability 0.535445
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14634806 92 + 21146708
GUGCGCCGCAAACGGCGCCGUCGAGUGAAGUGCCUCGACUCCUUGCGGGCCUCUAGCCC-------AGUGUGUCGUUACUUUUAACGAGGUGUCGCAUG
(.((((((....)))))))((((((........))))))....(((((((.....))))-------.(..(.((((((....)))))).)..).))).. ( -36.80, z-score =  -2.06, R)
>droWil1.scaffold_180697 2103255 86 + 4168966
GCGCGCCACAAAC--------UGAGUGAAGUG-----ACUCCUGGCGGGCCUCCAGCCUUAGCCGUAGUGUGUCGUUACUUUUAACGAGGUGUCGCAUG
(((((((.((.((--------(((((......-----))))..(((((((.....))))..)))..))).))((((((....)))))))))).)))... ( -29.60, z-score =  -1.15, R)
>droAna3.scaffold_13266 2153059 91 - 19884421
GUGCGCCACAAACGGCGCCGUCGACUGAAGUGC-UCGACUCCUUGCGGGCCUGCGGCCC-------AGUGUGUCGUUACUUUUAACGAGGUGUCGCAUG
(((((.(((.(((((((((((((((......).-))))).......(((((...)))))-------.).)))))))).(((.....)))))).))))). ( -36.40, z-score =  -1.42, R)
>droEre2.scaffold_4845 8826428 92 + 22589142
GUGCGCCACAAACGGCGCCGUCGAGUGAAGUGCCUCGACUCCUUGCGGGCCUGCAGCCC-------AGUGUGUCGUUACUUUUAACGAGGUGUCGCAUG
(((((.(((.(((((((((((((((........)))))).......((((.....))))-------.).)))))))).(((.....)))))).))))). ( -36.70, z-score =  -1.77, R)
>droYak2.chr2R 6575970 92 - 21139217
GUGCGCCACAAACGGCGCCGUCGAGUGAAGUGCCUCGACUCCUUGCGGGCCUGCAGCCC-------AGUGUGUCGUUACUUUUAACGAGGUGUCGCAUG
(((((.(((.(((((((((((((((........)))))).......((((.....))))-------.).)))))))).(((.....)))))).))))). ( -36.70, z-score =  -1.77, R)
>droSec1.super_1 12143466 92 + 14215200
GUGCGCCACAAACGGCGCCGUCGAGUGAAGUGCCUCGACUCCUUGCGGGCCUGCAGCCC-------AGUGUGUCGUUACUUUUAACGAGGUGUCGCAUG
(((((.(((.(((((((((((((((........)))))).......((((.....))))-------.).)))))))).(((.....)))))).))))). ( -36.70, z-score =  -1.77, R)
>droSim1.chr2R 13351293 92 + 19596830
GUGCGCCACAAACGGCGCCGUCGAGUGAAGUGCCUCGACUCCUUGCGGGCCUGCAGCCC-------AGUGUGUCGUUACUUUUAACGAGGUGUCGCAUG
(((((.(((.(((((((((((((((........)))))).......((((.....))))-------.).)))))))).(((.....)))))).))))). ( -36.70, z-score =  -1.77, R)
>consensus
GUGCGCCACAAACGGCGCCGUCGAGUGAAGUGCCUCGACUCCUUGCGGGCCUGCAGCCC_______AGUGUGUCGUUACUUUUAACGAGGUGUCGCAUG
(((((.(((.((((((((.((((((........)))))).......((((.....))))..........)))))))).(((.....)))))).))))). (-28.10 = -29.71 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,634,806 – 14,634,898
Length 92
Sequences 7
Columns 99
Reading direction reverse
Mean pairwise identity 90.78
Shannon entropy 0.17880
G+C content 0.60409
Mean single sequence MFE -34.41
Consensus MFE -28.16
Energy contribution -30.04
Covariance contribution 1.88
Combinations/Pair 1.04
Mean z-score -1.70
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.41
SVM RNA-class probability 0.682460
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14634806 92 - 21146708
CAUGCGACACCUCGUUAAAAGUAACGACACACU-------GGGCUAGAGGCCCGCAAGGAGUCGAGGCACUUCACUCGACGGCGCCGUUUGCGGCGCAC
..(((......((((((....))))))......-------((((.....)))))))....((((((........)))))).((((((....)))))).. ( -38.80, z-score =  -3.21, R)
>droWil1.scaffold_180697 2103255 86 - 4168966
CAUGCGACACCUCGUUAAAAGUAACGACACACUACGGCUAAGGCUGGAGGCCCGCCAGGAGU-----CACUUCACUCA--------GUUUGUGGCGCGC
...(((.(...((((((....))))))((((..(((((...(((.....))).)))..((((-----......)))).--------)).)))))))).. ( -25.10, z-score =  -0.20, R)
>droAna3.scaffold_13266 2153059 91 + 19884421
CAUGCGACACCUCGUUAAAAGUAACGACACACU-------GGGCCGCAGGCCCGCAAGGAGUCGA-GCACUUCAGUCGACGGCGCCGUUUGUGGCGCAC
..(((......((((((....))))))......-------(((((...))))))))....(((((-.(......)))))).((((((....)))))).. ( -33.00, z-score =  -0.95, R)
>droEre2.scaffold_4845 8826428 92 - 22589142
CAUGCGACACCUCGUUAAAAGUAACGACACACU-------GGGCUGCAGGCCCGCAAGGAGUCGAGGCACUUCACUCGACGGCGCCGUUUGUGGCGCAC
..(((......((((((....))))))......-------((((.....)))))))....((((((........)))))).((((((....)))))).. ( -36.00, z-score =  -1.89, R)
>droYak2.chr2R 6575970 92 + 21139217
CAUGCGACACCUCGUUAAAAGUAACGACACACU-------GGGCUGCAGGCCCGCAAGGAGUCGAGGCACUUCACUCGACGGCGCCGUUUGUGGCGCAC
..(((......((((((....))))))......-------((((.....)))))))....((((((........)))))).((((((....)))))).. ( -36.00, z-score =  -1.89, R)
>droSec1.super_1 12143466 92 - 14215200
CAUGCGACACCUCGUUAAAAGUAACGACACACU-------GGGCUGCAGGCCCGCAAGGAGUCGAGGCACUUCACUCGACGGCGCCGUUUGUGGCGCAC
..(((......((((((....))))))......-------((((.....)))))))....((((((........)))))).((((((....)))))).. ( -36.00, z-score =  -1.89, R)
>droSim1.chr2R 13351293 92 - 19596830
CAUGCGACACCUCGUUAAAAGUAACGACACACU-------GGGCUGCAGGCCCGCAAGGAGUCGAGGCACUUCACUCGACGGCGCCGUUUGUGGCGCAC
..(((......((((((....))))))......-------((((.....)))))))....((((((........)))))).((((((....)))))).. ( -36.00, z-score =  -1.89, R)
>consensus
CAUGCGACACCUCGUUAAAAGUAACGACACACU_______GGGCUGCAGGCCCGCAAGGAGUCGAGGCACUUCACUCGACGGCGCCGUUUGUGGCGCAC
..(((......((((((....)))))).............((((.....)))))))....((((((........)))))).((((((....)))))).. (-28.16 = -30.04 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:32:46 2011