Locus 12311

Sequence ID dm3.chr3R
Location 27,295,883 – 27,295,981
Length 98
Max. P 0.732616
window16924

overview

Window 4

Location 27,295,883 – 27,295,981
Length 98
Sequences 8
Columns 105
Reading direction forward
Mean pairwise identity 76.23
Shannon entropy 0.42714
G+C content 0.46138
Mean single sequence MFE -26.20
Consensus MFE -15.32
Energy contribution -14.60
Covariance contribution -0.72
Combinations/Pair 1.39
Mean z-score -1.57
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.53
SVM RNA-class probability 0.732616
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27295883 98 + 27905053
AAACAAAAGACUGAGGGCACAAACUUGGCCGGAACGCACUUGCUGCGUUUCGCGAGU-------UAUUGUUGGCUCUCGCUUUUCGUUCGUUCAUUUCUUUUGGC
...(((((((..(((((((((((((((..(((((((((.....))))))))))))))-------..))))..))))))((.....)).........))))))).. ( -31.20, z-score =  -1.96, R)
>droSim1.chr3R 26927690 94 + 27517382
AAACAAAAGACUGAGGGCACAAACUUGGCCGGAACGCACUUGCUGCGUUUCGCGAGU-------UAUUGUUGGCUCUCGCUUUUCGUU----CAUUUCUUUUGGC
...(((((((..(((((((((((((((..(((((((((.....))))))))))))))-------..))))..))))))((.....)).----....))))))).. ( -31.20, z-score =  -2.46, R)
>droSec1.super_4 6095514 94 + 6179234
AAACAAAAGACUGAGGGCACAAACUUGGCCGGAACGCACUUGCUGCGUUUCGCGAGU-------UAUUGUGGGCUCUCGCUUUUCGUU----CAUUUCUUUUGGC
...(((((((..(((((((((((((((..(((((((((.....))))))))))))))-------..))))..))))))((.....)).----....))))))).. ( -31.20, z-score =  -2.24, R)
>droYak2.chr3R 28228654 94 + 28832112
AAACAAAAGACUGAGGGCACAAACUUGGCCGGAACGCACUUGCUGCGUUUUGCGAGU-------UAUUGUUGGCUCUCGCUUUUCGUU----CAUUUCUUUUGGC
...(((((((..(((((((((((((((..(((((((((.....))))))))))))))-------..))))..))))))((.....)).----....))))))).. ( -29.20, z-score =  -1.89, R)
>droEre2.scaffold_4820 9781513 94 - 10470090
AAACAAAAGACUGAGGGCACAAACUUGGCCGGAACGCACUUGCUGCGUUUCGCGAGU-------UAUUGUUGGCUCUCGCUUUUCGUU----CAUUUCUUUUGGC
...(((((((..(((((((((((((((..(((((((((.....))))))))))))))-------..))))..))))))((.....)).----....))))))).. ( -31.20, z-score =  -2.46, R)
>droAna3.scaffold_13340 16421828 101 + 23697760
AGACAAAAGACUUAGGGCACAAACUUGGCCGGAACGCACUUGAUGCGUUUCGCGAGUGGCGUUUUAUUGUUAGUUCUCGGUUUUUGCC----CAUUUCUUUUGGC
...(((((((..(.(((((.((((.....(((((((((.....)))))))))(((((((((......)))))...)))))))).))))----))..))))))).. ( -36.20, z-score =  -3.37, R)
>dp4.chr2 4522653 77 + 30794189
AGACAAAAGACUCGAGACACAAACUUGGCCAAAACGCACUUGUUGCGAUUU-CAGCU-------UUUUGCCCAUUUUCUUUGACU--------------------
...(((((..((.(((((.(((.....((......)).....))).).)))-)))..-------)))))................-------------------- (  -9.70, z-score =   0.90, R)
>droPer1.super_19 221367 77 + 1869541
AGACAAAAGACUCGAGACACAAACUUGGCCAAAACGCACUUGUUGCGAUUU-CAGCU-------UUUUGCCCAUUUUCUUUGACU--------------------
...(((((..((.(((((.(((.....((......)).....))).).)))-)))..-------)))))................-------------------- (  -9.70, z-score =   0.90, R)
>consensus
AAACAAAAGACUGAGGGCACAAACUUGGCCGGAACGCACUUGCUGCGUUUCGCGAGU_______UAUUGUUGGCUCUCGCUUUUCGUU____CAUUUCUUUUGGC
.............((((((((((((((..(((((((((.....)))))))))))))).........))))..)))))............................ (-15.32 = -14.60 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:59:43 2011