Locus 10793

Sequence ID dm3.chr3R
Location 16,524,937 – 16,525,036
Length 99
Max. P 0.929565
window14830 window14831

overview

Window 0

Location 16,524,937 – 16,525,036
Length 99
Sequences 7
Columns 105
Reading direction forward
Mean pairwise identity 75.18
Shannon entropy 0.49493
G+C content 0.53476
Mean single sequence MFE -28.61
Consensus MFE -14.86
Energy contribution -15.40
Covariance contribution 0.54
Combinations/Pair 1.33
Mean z-score -1.29
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.584154
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16524937 99 + 27905053
UAAUCGAUGCCAAC-AGCCUCGACUCGCUAACCGGGUUUCAGCCU----GGCAGCGGGCUGAAUGCCAGCCAUUCAAACGUGGCCCAUUCAACUGCACUCAGCC-
...((((.((....-.)).))))..((((..((((((....))))----)).))))((((((.(((..(((((......)))))..........))).))))))- ( -35.30, z-score =  -2.36, R)
>droWil1.scaffold_181108 2354427 100 - 4707319
UAAUCGAUGGCAGC--UCCACAGUAAAUCGAAUUUCAAUAAAGUCCAC-GAUGGC-AGCCGAAGGC-AACCAUUCAAACGUAACCCAUUCAAUUGCAGUUCACUC
.....(((....((--(....)))..)))(((((.((((...(....)-(((((.-.(((...)))-..))))).................)))).))))).... ( -13.30, z-score =   0.74, R)
>droAna3.scaffold_13340 10637321 105 - 23697760
UAAUCGAUAAUUCCGAGUUUCAAUACGUUGGCUGCCUUACGGGCUUACAGGAAACGAGCUGAAUGCCAGGCAUUCAAACGUGGCCCAUUCAGUUGCACUCAGCCG
...(((.......))).............(((((((....))((.....(....).((((((((((((.(........).))))..))))))))))...))))). ( -27.80, z-score =  -0.56, R)
>droEre2.scaffold_4770 12605742 99 - 17746568
UAAUCGAUGCCUAC-AGCCUCGACUCGCUAACCGGGUUUCAGCAU----GGUAGCGGGCUGAAUGCCAGCCAUUCAAACGUGGCCCAUUCAACUGCACUCAGCC-
...((((.((....-.)).))))..(((((.(((.((....)).)----)))))))((((((.(((..(((((......)))))..........))).))))))- ( -31.60, z-score =  -1.42, R)
>droYak2.chr3R 5313503 90 + 28832112
UAAUCGAUGCUUAC-AGCCUCGACUCGCUUUCC---------CAU----GGCAGCGGGCUGAAUGCCAGCCAUUCAAACGUGGCCCAUUCAACUGCACUCAGCC-
...((((.((....-.)).))))...(((....---------...----))).((((..((((((...(((((......))))).)))))).))))........- ( -26.50, z-score =  -1.37, R)
>droSec1.super_27 587630 99 - 799419
UAAUCGAUGCAAAC-AGCCUCGACUCGCUAACCGGGUUUCAGCCA----GGCAGCGGGCUGAAUGCCAGCCAUUCAAACGUGGCCCAUUUAACUGCACUCAGCC-
...((((.((....-.)).))))..((((..((.(((....))).----)).))))((((((.(((..(((((......)))))..........))).))))))- ( -31.90, z-score =  -1.56, R)
>droSim1.chr3R 22578399 99 - 27517382
UAAUCGAUGCCAAC-AGCCUCGACUCGCUAACCGGGUUUCAUCCU----GGCAGCGGGCUGAAUGCCAGCCAUUCAAACGUGGCCCAUUCAACUGCACUCAGCC-
...((((.((....-.)).))))..((((..(((((......)))----)).))))((((((.(((..(((((......)))))..........))).))))))- ( -33.90, z-score =  -2.46, R)
>consensus
UAAUCGAUGCCAAC_AGCCUCGACUCGCUAACCGGGUUUCAGCCU____GGCAGCGGGCUGAAUGCCAGCCAUUCAAACGUGGCCCAUUCAACUGCACUCAGCC_
...((((.((......)).))))..((((.......................))))((((((.(((..(((((......)))))..........))).)))))). (-14.86 = -15.40 +   0.54)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,524,937 – 16,525,036
Length 99
Sequences 7
Columns 105
Reading direction reverse
Mean pairwise identity 75.18
Shannon entropy 0.49493
G+C content 0.53476
Mean single sequence MFE -35.47
Consensus MFE -24.64
Energy contribution -24.96
Covariance contribution 0.32
Combinations/Pair 1.36
Mean z-score -1.30
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.929565
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16524937 99 - 27905053
-GGCUGAGUGCAGUUGAAUGGGCCACGUUUGAAUGGCUGGCAUUCAGCCCGCUGCC----AGGCUGAAACCCGGUUAGCGAGUCGAGGCU-GUUGGCAUCGAUUA
-(((((((((((((((((((.....)))))....)))).))))))))))(((((((----.((......)).)).)))))((((((.((.-....)).)))))). ( -41.40, z-score =  -1.83, R)
>droWil1.scaffold_181108 2354427 100 + 4707319
GAGUGAACUGCAAUUGAAUGGGUUACGUUUGAAUGGUU-GCCUUCGGCU-GCCAUC-GUGGACUUUAUUGAAAUUCGAUUUACUGUGGA--GCUGCCAUCGAUUA
.(((((((..(..(..((((.....))))..)(((((.-(((...))).-))))).-)..)......(((.....)))))))))((((.--....))))...... ( -21.90, z-score =   0.47, R)
>droAna3.scaffold_13340 10637321 105 + 23697760
CGGCUGAGUGCAACUGAAUGGGCCACGUUUGAAUGCCUGGCAUUCAGCUCGUUUCCUGUAAGCCCGUAAGGCAGCCAACGUAUUGAAACUCGGAAUUAUCGAUUA
.(((((..((((...((((((((......(((((((...)))))))))))))))..))))...((....))))))).............((((.....))))... ( -28.70, z-score =  -0.01, R)
>droEre2.scaffold_4770 12605742 99 + 17746568
-GGCUGAGUGCAGUUGAAUGGGCCACGUUUGAAUGGCUGGCAUUCAGCCCGCUACC----AUGCUGAAACCCGGUUAGCGAGUCGAGGCU-GUAGGCAUCGAUUA
-(((((((((((((((((((.....)))))....)))).))))))))))(((((..----..((((.....)))))))))((((((.((.-....)).)))))). ( -38.40, z-score =  -1.63, R)
>droYak2.chr3R 5313503 90 - 28832112
-GGCUGAGUGCAGUUGAAUGGGCCACGUUUGAAUGGCUGGCAUUCAGCCCGCUGCC----AUG---------GGAAAGCGAGUCGAGGCU-GUAAGCAUCGAUUA
-(((((((((((((((((((.....)))))....)))).))))))))))((((.((----...---------))..))))((((((.((.-....)).)))))). ( -34.80, z-score =  -1.45, R)
>droSec1.super_27 587630 99 + 799419
-GGCUGAGUGCAGUUAAAUGGGCCACGUUUGAAUGGCUGGCAUUCAGCCCGCUGCC----UGGCUGAAACCCGGUUAGCGAGUCGAGGCU-GUUUGCAUCGAUUA
-(((((((((((((((((((.....))))))....))).))))))))))(((((((----.((......)).)).)))))((((((.((.-....)).)))))). ( -41.70, z-score =  -2.37, R)
>droSim1.chr3R 22578399 99 + 27517382
-GGCUGAGUGCAGUUGAAUGGGCCACGUUUGAAUGGCUGGCAUUCAGCCCGCUGCC----AGGAUGAAACCCGGUUAGCGAGUCGAGGCU-GUUGGCAUCGAUUA
-(((((((((((((((((((.....)))))....)))).))))))))))(((((((----.((......)).)).)))))((((((.((.-....)).)))))). ( -41.40, z-score =  -2.30, R)
>consensus
_GGCUGAGUGCAGUUGAAUGGGCCACGUUUGAAUGGCUGGCAUUCAGCCCGCUGCC____AGGCUGAAACCCGGUUAGCGAGUCGAGGCU_GUUGGCAUCGAUUA
.(((((((((((((((((((.....)))))....)))).))))))))))((((((..................)).))))((((((.((......)).)))))). (-24.64 = -24.96 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:30:33 2011