Locus 5765

Sequence ID dm3.chr3L
Location 961,696 – 961,830
Length 134
Max. P 0.885608
window7928 window7929

overview

Window 8

Location 961,696 – 961,794
Length 98
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 56.51
Shannon entropy 0.77771
G+C content 0.33169
Mean single sequence MFE -19.07
Consensus MFE -7.93
Energy contribution -6.82
Covariance contribution -1.11
Combinations/Pair 1.64
Mean z-score -1.01
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.07
SVM RNA-class probability 0.885608
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 961696 98 + 24543557
-------CUAGUAUCCG------GUUGAAUUU-UUGUACCAAACUGGAGUAAAUUUCUAUGACAGUUAUGAGUUUAUUCUAAAAAUAUACAUCGAAACCAUAACUGACUGGC
-------(((((.((((------(((......-........)))))))..............((((((((.((((...................))))))))))))))))). ( -21.55, z-score =  -2.16, R)
>droAna3.scaffold_13337 16336456 74 - 23293914
--------------------------UUAUUC-UCAAAAUGGUGUGUAAUAUUUUUGGCUAUUUGCUGUAAGUUUUCUUCAUG-----ACUCUGCAAUUAUAGUUC------
--------------------------......-.(((((..((.....))..)))))(((((((((....((((........)-----)))..))))..)))))..------ (  -8.40, z-score =   0.29, R)
>droEre2.scaffold_4784 962874 99 + 25762168
-------CCAGUAUCUA-----GAUUAUGUCUAUUGUAGCACAGUUAAGUACCAUUCUGUUGCAGUUAUGAGCUUGUUC-AAAGACAAACAUUAAGACCAUAACUGAUUGGC
-------(((((...((-----(.(((((((((((((((((.(((........))).))))))))).....(.(((((.-...))))).)....))).))))))))))))). ( -18.60, z-score =   0.09, R)
>droYak2.chr3L 937187 110 + 24197627
CUAGUAUCUAGUAUGUCUGAUCGUUUAUGUAUUUUGUAGCAGUUUGAAGUAAAAUUCUGUUGCAGUUAUGAACUUACCU-AAA-AUAUACAUUAAGAUCAUAACUGAUGUGC
..........(((((((..................(((((((..(........)..)))))))((((((((.((((...-...-........)))).))))))))))))))) ( -22.64, z-score =  -1.22, R)
>droSec1.super_2 973408 93 + 7591821
-------CUAGUAUUCA------GUUGGAUUC-U----CCAAAUUGGAAUACAUUUCGAUGGCAGUUGUGAGUUUAUUC-AAAAAUAUACAUCGAGACCAUAACUGAUUGGC
-------...((((((.------.((((....-.----))))....)))))).((((((((.......((((....)))-)........))))))))(((........))). ( -23.36, z-score =  -2.21, R)
>droSim1.chr3L 593673 92 + 22553184
--------UCUUAUCCA------GUUGGAUAC-U----CCAAAUUAGAGUACAUUUCUGUGGCAGUUGUGAGUUUAUUC-AAAAAUAUACAUUGAGAGCAUAACUGAUUGGC
--------...(((((.------...))))).-.----((((..(((((.....)))))...((((((((..((((...-............))))..)))))))).)))). ( -19.86, z-score =  -0.87, R)
>consensus
_______CUAGUAUCCA______GUUGUAUUC_UUGUACCAAAUUGGAGUACAUUUCUGUGGCAGUUAUGAGUUUAUUC_AAAAAUAUACAUUGAGACCAUAACUGAUUGGC
..............................................................((((((((..(((..................)))..))))))))...... ( -7.93 =  -6.82 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 961,735 – 961,830
Length 95
Sequences 7
Columns 114
Reading direction forward
Mean pairwise identity 54.55
Shannon entropy 0.82974
G+C content 0.32789
Mean single sequence MFE -18.83
Consensus MFE -5.73
Energy contribution -5.10
Covariance contribution -0.63
Combinations/Pair 1.73
Mean z-score -1.22
Structure conservation index 0.30
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.32
SVM RNA-class probability 0.642520
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 961735 95 + 24543557
----------------UUUCUAUGACAGUUAUGAGUUUAUUCUAAAAAUAUACAUCGAAACCAUAACUGACUGGCUUUCAAAAUUGUCAAGCCACUU-GCCG--AUUAUGGUAU
----------------...((((((((((((((.((((...................))))))))))))..((((((.((....))..))))))...-....--.))))))... ( -19.41, z-score =  -2.22, R)
>droAna3.scaffold_13337 16336482 81 - 23293914
----------------UUUGGCUAUUUGCUGUAAGUUUUCUUCAUG-----ACUCUGCAAUUAUAGUUCUU----CCUUAAAAUUAAUAUUCUAAAGGAGUACCCU--------
----------------...((((((((((....((((........)-----)))..))))..)))))).((----((((...............))))))......-------- ( -10.76, z-score =  -0.05, R)
>droEre2.scaffold_4784 962915 94 + 25762168
----------------AUUCUGUUGCAGUUAUGAGCUUGUUC-AAAGACAAACAUUAAGACCAUAACUGAUUGGCUUCAGAAAUUGUCAAGCCAUUU-GCCG--AUCAAGCUAU
----------------........(((((((((..((((...-............))))..)))))))(((((((......................-))))--)))..))... ( -19.71, z-score =  -0.66, R)
>droYak2.chr3L 937240 96 + 24197627
----------------AUUCUGUUGCAGUUAUGAACUUACCU-AAA-AUAUACAUUAAGAUCAUAACUGAUGUGCUUUAAAAAUUGUCAAGCCAUUUUGGCGGCAUUAAGCCAU
----------------.........(((((((((.((((...-...-........)))).)))))))))(((.((((.......((((..(((.....)))))))..))))))) ( -22.34, z-score =  -2.22, R)
>droSec1.super_2 973443 94 + 7591821
----------------UUUCGAUGGCAGUUGUGAGUUUAUUC-AAAAAUAUACAUCGAGACCAUAACUGAUUGGCUUUCAAAAUUGUCAAGCCACUU-GCCG--AUUAUGGUAU
----------------.(((((((.......((((....)))-)........)))))))((((((((.(..((((((.((....))..))))))...-.).)--.))))))).. ( -22.36, z-score =  -1.72, R)
>droSim1.chr3L 593707 94 + 22553184
----------------UUUCUGUGGCAGUUGUGAGUUUAUUC-AAAAAUAUACAUUGAGAGCAUAACUGAUUGGCUUUCAAAAUUGUCAAGCCACUU-GCCG--AUUAUGGUAU
----------------.....((((((((((((..((((...-............))))..)))))))..(((((..........)))))))))).(-(((.--.....)))). ( -23.16, z-score =  -1.58, R)
>droMoj3.scaffold_6680 21325619 111 + 24764193
UCAUUGACAUAUACUAUUUCAUAUUCAAAAAUAAAUAUGUUAUUUGCGAUUGUUGGCAGACUAUUGCAGAACAUCAUCAACAUAUAUUGGAUUACAC-AUUAAAAUAAACAU--
....((((((((..(((((.........))))).))))))))((((((((.(((....))).))))))))...........................-..............-- ( -14.10, z-score =  -0.08, R)
>consensus
________________UUUCUGUGGCAGUUAUGAGUUUAUUC_AAAAAUAUACAUUGAGACCAUAACUGAUUGGCUUUAAAAAUUGUCAAGCCACUU_GCCG__AUUAAGGUAU
.........................((((((((..(((..................)))..))))))))............................................. ( -5.73 =  -5.10 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:54:45 2011