Locus 11740

Sequence ID dm3.chr3R
Location 23,405,068 – 23,405,162
Length 94
Max. P 0.922221
window16133 window16134

overview

Window 3

Location 23,405,068 – 23,405,162
Length 94
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 72.87
Shannon entropy 0.49504
G+C content 0.45201
Mean single sequence MFE -26.22
Consensus MFE -15.14
Energy contribution -15.39
Covariance contribution 0.25
Combinations/Pair 1.24
Mean z-score -1.61
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.29
SVM RNA-class probability 0.922221
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23405068 94 + 27905053
CUUAAUUGCACCCUA-GUCACGUUCGGUUU-GGGAACUUUACGC-UGGGCGUGCUUGGGUUGCCUUGUGGAUUACAUGGAUUAUGGAUUAUAAUUAA
..(((((((((((.(-(.((((((((((..-(....).....))-)))))))))).))).))).(..((.....))..)......)))))....... ( -26.40, z-score =  -1.57, R)
>droSim1.chr3R 23136351 94 + 27517382
CUUAAUUGCAACCUA-GUCACGUUCGAUUU-GGGAACUUUACGC-UGGGCGUGCUUGGGUUGCCUUGUGGGCUAUAUGGAUUAUGGAUUAUAAUUAA
.......((((((((-(.((((((((....-(....).......-)))))))).))))))))).((((((.(((((.....))))).)))))).... ( -27.00, z-score =  -2.14, R)
>droSec1.super_22 38648 94 + 1066717
CUUAAUUGCAACCUA-GUCACGUUCGAUUU-GGGAACUUUACGC-UGGGCGUGCUUGGGUUGCCUUGUGGGCUAUAUGGAUUAUGGAUUAUAAUUAA
.......((((((((-(.((((((((....-(....).......-)))))))).))))))))).((((((.(((((.....))))).)))))).... ( -27.00, z-score =  -2.14, R)
>droYak2.chr3R 5749026 82 - 28832112
CUUAAUUGCACCCUA-GUCACGUUCGAUUU-GGGAACUUUACGCCUGGGCGUGCCUAGGUUGCCUUGUGGAUUAUGGCAAUUGA-------------
.((((((((......-.(((((..((((((-(((.....(((((....))))))))))))))...)))))......))))))))------------- ( -26.82, z-score =  -1.99, R)
>droEre2.scaffold_4820 5837286 81 - 10470090
CUUAAUUGCACCCUA-GUCACGUUCGAUUU-GGGAACCUAACGC-UGGGCGUGCUUAGGUUGCCUUGUGGAUUAUGGCAAUAGU-------------
.......((((((((-((...((((.....-..)))).....))-)))).))))....((((((...........))))))...------------- ( -23.70, z-score =  -0.92, R)
>droAna3.scaffold_13340 4409907 90 - 23697760
UAUAAGUGCUCUGGAAGUCACGUUCGGUUUUGGGGACUCUGCGA-CGAGCGUGCC--AGUUACUGAAUGAGUUA--GUAGUUACUAGUUAGUACU--
....((((((((((..(.((((((((((...(....)...))..-)))))))).)--..(((((((.....)))--))))...))))..))))))-- ( -26.40, z-score =  -0.88, R)
>consensus
CUUAAUUGCACCCUA_GUCACGUUCGAUUU_GGGAACUUUACGC_UGGGCGUGCUUGGGUUGCCUUGUGGAUUAUAGGAAUUAUGGAUUAUAAUU__
.......(((.((((.(.((((((((.....(....)........))))))))).)))).))).................................. (-15.14 = -15.39 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 23,405,068 – 23,405,162
Length 94
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 72.87
Shannon entropy 0.49504
G+C content 0.45201
Mean single sequence MFE -17.60
Consensus MFE -9.77
Energy contribution -10.47
Covariance contribution 0.70
Combinations/Pair 1.07
Mean z-score -1.55
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.878236
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23405068 94 - 27905053
UUAAUUAUAAUCCAUAAUCCAUGUAAUCCACAAGGCAACCCAAGCACGCCCA-GCGUAAAGUUCCC-AAACCGAACGUGAC-UAGGGUGCAAUUAAG
((((((...............(((.....)))..(((.(((.(((((((...-)).....((((..-.....))))))).)-).)))))))))))). ( -17.50, z-score =  -1.77, R)
>droSim1.chr3R 23136351 94 - 27517382
UUAAUUAUAAUCCAUAAUCCAUAUAGCCCACAAGGCAACCCAAGCACGCCCA-GCGUAAAGUUCCC-AAAUCGAACGUGAC-UAGGUUGCAAUUAAG
..................................((((((..(((((((...-)).....((((..-.....))))))).)-).))))))....... ( -16.20, z-score =  -2.16, R)
>droSec1.super_22 38648 94 - 1066717
UUAAUUAUAAUCCAUAAUCCAUAUAGCCCACAAGGCAACCCAAGCACGCCCA-GCGUAAAGUUCCC-AAAUCGAACGUGAC-UAGGUUGCAAUUAAG
..................................((((((..(((((((...-)).....((((..-.....))))))).)-).))))))....... ( -16.20, z-score =  -2.16, R)
>droYak2.chr3R 5749026 82 + 28832112
-------------UCAAUUGCCAUAAUCCACAAGGCAACCUAGGCACGCCCAGGCGUAAAGUUCCC-AAAUCGAACGUGAC-UAGGGUGCAAUUAAG
-------------..(((((((.....((....))...(((((.(((((....)).....((((..-.....))))))).)-))))).))))))... ( -22.20, z-score =  -2.17, R)
>droEre2.scaffold_4820 5837286 81 + 10470090
-------------ACUAUUGCCAUAAUCCACAAGGCAACCUAAGCACGCCCA-GCGUUAGGUUCCC-AAAUCGAACGUGAC-UAGGGUGCAAUUAAG
-------------....(((((...........))))).....((((.((..-..((((.((((..-.....)))).))))-..))))))....... ( -20.30, z-score =  -1.73, R)
>droAna3.scaffold_13340 4409907 90 + 23697760
--AGUACUAACUAGUAACUAC--UAACUCAUUCAGUAACU--GGCACGCUCG-UCGCAGAGUCCCCAAAACCGAACGUGACUUCCAGAGCACUUAUA
--........(((((.(((..--..........))).)))--))...(((((-((((...................))))).....))))....... ( -13.21, z-score =   0.67, R)
>consensus
__AAUUAUAAUCCAUAAUCCAUAUAACCCACAAGGCAACCCAAGCACGCCCA_GCGUAAAGUUCCC_AAAUCGAACGUGAC_UAGGGUGCAAUUAAG
..................................(((.((....(((((....)).....((((........))))))).....)).)))....... ( -9.77 = -10.47 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:48:42 2011