Locus 2732

Sequence ID dm3.chr2L
Location 21,702,653 – 21,702,791
Length 138
Max. P 0.925142
window3757 window3758

overview

Window 7

Location 21,702,653 – 21,702,791
Length 138
Sequences 4
Columns 142
Reading direction forward
Mean pairwise identity 78.61
Shannon entropy 0.35130
G+C content 0.35627
Mean single sequence MFE -29.33
Consensus MFE -17.66
Energy contribution -17.72
Covariance contribution 0.06
Combinations/Pair 1.27
Mean z-score -1.85
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.47
SVM RNA-class probability 0.708546
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21702653 138 + 23011544
UUGCUUGUACGGCACUCCGAACAGCUCUUUUA-AACAGCUGAUAUCUUAACCGUACGUGAUUUUUUA-AAUUUCUGGCAUGCAACAAUAAGGUCUAAUCUUAUACUAACAUAAUGGCAUAA--AAAACUUAGUAUUACGGAC
......((((((.........(((((......-...))))).........))))))...........-....((((..((((....(((((((...))))))).(((......))).....--........))))..)))). ( -21.77, z-score =   0.03, R)
>droSim1.chrU 4924553 141 - 15797150
UUGUGCGCACGGCACUCCGAACAGCUGUUCUA-AACAGCUGAUAUCUUAACCGUACGGGAUUUUUUUUAAUUUCUGGUACGCAACCCUAAAGUCUAAUCUUAUAAUAACAUAAUGGCGUAAUCAAAACUUAGUAUUACAGAC
...(((((.(((....)))..(((((((....-.)))))))..........(((((.(((..((....))..))).)))))..................................)))))...................... ( -28.80, z-score =  -1.09, R)
>droSec1.super_26 339118 138 + 826190
UUGUGCGCACGGCACUCC-AACAGCUGUUUUA-AACAGCUGAUAUCUUAACCGUGCGGGAUUUUUUU-AAUUUCUGGUACGCAACACUAAAGUCUAAU-UUAUACUAACAUGAUGGCGUAAUCAAAACGUAGUAUUACGGAC
..((((((((((......-..(((((((....-.))))))).........))))))(..(((.....-)))..)..))))...........((((...-..((((((...((((......)))).....))))))...)))) ( -36.13, z-score =  -2.52, R)
>droEre2.scaffold_4845 20085830 129 - 22589142
CUCUUGGCACAACACUCCGAACAGCUGUUUUUUAACAGCUGAUA--UUCAGUGUGUGACAUUUUCAA-AAGUUUUGG----------UAAUUUAUAAUCUUAUACUAACACAAUGACUUUAUCAAAACUUAAUAUUAAGGAC
.((((((((((.((((..(((((((((((....))))))))...--)))))))))))..........-(((((((((----------(((.((((.................))))..))))))))))))....)))))).. ( -30.63, z-score =  -3.82, R)
>consensus
UUGUGCGCACGGCACUCCGAACAGCUGUUUUA_AACAGCUGAUAUCUUAACCGUACGGGAUUUUUUA_AAUUUCUGGUACGCAACACUAAAGUCUAAUCUUAUACUAACAUAAUGGCGUAAUCAAAACUUAGUAUUACGGAC
.....(((((((.........((((((((....)))))))).........)))))))..................................................................................... (-17.66 = -17.72 +   0.06)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 21,702,653 – 21,702,791
Length 138
Sequences 4
Columns 142
Reading direction reverse
Mean pairwise identity 78.61
Shannon entropy 0.35130
G+C content 0.35627
Mean single sequence MFE -33.00
Consensus MFE -22.75
Energy contribution -27.19
Covariance contribution 4.44
Combinations/Pair 1.17
Mean z-score -1.98
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.31
SVM RNA-class probability 0.925142
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 21702653 138 - 23011544
GUCCGUAAUACUAAGUUUU--UUAUGCCAUUAUGUUAGUAUAAGAUUAGACCUUAUUGUUGCAUGCCAGAAAUU-UAAAAAAUCACGUACGGUUAAGAUAUCAGCUGUU-UAAAAGAGCUGUUCGGAGUGCCGUACAAGCAA
....((((((.((((..((--((((((.(......).))))))))......)))).)))))).(((..((....-.......))..(((((((...((...(((((.(.-....).))))).)).....)))))))..))). ( -29.80, z-score =  -1.22, R)
>droSim1.chrU 4924553 141 + 15797150
GUCUGUAAUACUAAGUUUUGAUUACGCCAUUAUGUUAUUAUAAGAUUAGACUUUAGGGUUGCGUACCAGAAAUUAAAAAAAAUCCCGUACGGUUAAGAUAUCAGCUGUU-UAGAACAGCUGUUCGGAGUGCCGUGCGCACAA
((.(((((..(((((.(((((((......(((((....)))))))))))).)))))..))))).))...................((((((((...((...(((((((.-....))))))).)).....))))))))..... ( -35.70, z-score =  -1.73, R)
>droSec1.super_26 339118 138 - 826190
GUCCGUAAUACUACGUUUUGAUUACGCCAUCAUGUUAGUAUAA-AUUAGACUUUAGUGUUGCGUACCAGAAAUU-AAAAAAAUCCCGCACGGUUAAGAUAUCAGCUGUU-UAAAACAGCUGUU-GGAGUGCCGUGCGCACAA
((.((((((((((.(.(((((((((............)))...-)))))).).)))))))))).))........-..........((((((((.....((.(((((((.-....))))))).)-)....))))))))..... ( -38.60, z-score =  -2.92, R)
>droEre2.scaffold_4845 20085830 129 + 22589142
GUCCUUAAUAUUAAGUUUUGAUAAAGUCAUUGUGUUAGUAUAAGAUUAUAAAUUA----------CCAAAACUU-UUGAAAAUGUCACACACUGAA--UAUCAGCUGUUAAAAAACAGCUGUUCGGAGUGUUGUGCCAAGAG
............((((((((.(((((((.(((((....))))))))).....)))----------.))))))))-.......((.((((((((...--...((((((((....)))))))).....)))).)))).)).... ( -27.90, z-score =  -2.05, R)
>consensus
GUCCGUAAUACUAAGUUUUGAUUACGCCAUUAUGUUAGUAUAAGAUUAGACUUUAGUGUUGCGUACCAGAAAUU_AAAAAAAUCCCGCACGGUUAAGAUAUCAGCUGUU_UAAAACAGCUGUUCGGAGUGCCGUGCGAACAA
((.((((((((((((.(((((((......(((((....)))))))))))).)))))))))))).))....................(((((((........((((((((....))))))))........)))))))...... (-22.75 = -27.19 +   4.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:56:53 2011