Locus 15524

Sequence ID dm3.chrX
Location 19,394,931 – 19,395,125
Length 194
Max. P 0.855151
window21408 window21409

overview

Window 8

Location 19,394,931 – 19,395,047
Length 116
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 73.17
Shannon entropy 0.35905
G+C content 0.45587
Mean single sequence MFE -28.57
Consensus MFE -19.90
Energy contribution -19.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.93
SVM RNA-class probability 0.855151
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19394931 116 + 22422827
GGAGGGCAGAGGGCUUUGAUGUCGCACAUAUGUACAUAUGUAUAUAAUGGUAAAAUGGUUCCGCAAAAGGGGCUGUAAUGACUCAAUGCGGCUGAGUCAGAGGCAGAGGCUAGAUA
....(((....(.(((((((((((((..(((((((....))))))).((((...((((((((......))))))))....)).)).))))))...))))))).)....)))..... ( -36.20, z-score =  -2.50, R)
>droSec1.super_8 1677972 90 + 3762037
--------------------------UGAUUUAACACAUUUGUAAAAUGGUAAAAUGGUUCCGCAAAAGGGGCUGUAAUGACUCAAUGCGACUGAGUCAGCGGCAGGGGCUAGAAA
--------------------------...((((...((((.....)))).)))).(((((((.........(((((..(((((((.......)))))))))))).))))))).... ( -23.00, z-score =  -1.45, R)
>droSim1.chrX_random 5046695 96 + 5698898
--------------------GGGCUUUGAUGUCACACAUUUGUAAAAUGGUAAAAUGGUUCCGCAAAAGGGGCUGUAAUGACUCAAUGCGGCUGAGUCAGAGGCAGGGGCUAGAAA
--------------------.(((((...((((((.((((.....))))))...((((((((......))))))))..(((((((.......)))))))..)))).)))))..... ( -26.50, z-score =  -1.15, R)
>consensus
____________________G_____UGAUUUAACACAUUUGUAAAAUGGUAAAAUGGUUCCGCAAAAGGGGCUGUAAUGACUCAAUGCGGCUGAGUCAGAGGCAGGGGCUAGAAA
...............................................((((.....((((((......))))))((..(((((((.......)))))))...))....)))).... (-19.90 = -19.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 19,395,008 – 19,395,125
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.13
Shannon entropy 0.19981
G+C content 0.48636
Mean single sequence MFE -39.38
Consensus MFE -30.86
Energy contribution -30.38
Covariance contribution -0.48
Combinations/Pair 1.17
Mean z-score -1.85
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.49
SVM RNA-class probability 0.715715
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19395008 117 + 22422827
AUGACUCAAUGC-GGCUGAGUCAGAGGCAGAGGCUAGAUAUCGAGUGGCAAC-AGUGUUUGUUUCUUUUCGCCAGUGAGGUGGAAAGUUUUGCA-UUUGCCGCUUGGCAGACCCAAUUUA
.(((((((....-...)))))))..(((....))).....(((((((((((.-.((((......(((((((((.....)))))))))....)))-))))))))))))............. ( -39.70, z-score =  -1.72, R)
>droEre2.scaffold_4690 9633321 109 + 18748788
AUUACUCAAUGC-GGCUGAGUCAG------AGCCUAGAAAUCGAGUGGCAAAGAGUG---CUUUCUUUUCGCCAGUGAGGUGGAAAGUUUUGCA-UUUGCCGUUUGGCGGAAUCAAUUUA
.........(((-((((.......------)))).......((((((((((...(((---(...(((((((((.....)))))))))....)))-))))))))))))))........... ( -33.30, z-score =  -1.19, R)
>droYak2.chrX 9829639 109 - 21770863
AUGGCUCAAUGCUGGCUGAGUCAG------AGGCUAGAAAUCGAGUGGCAAC-AGUG---GUUUCUUUUCGUCAGUGAGGUGGAAAGUUUUGCAGUU-GCCGUUCGACGGACCCAAUUUA
.(((.((....((((((.......------.))))))...((((((((((((-.(..---(...((((((..(.....)..))))))..)..).)))-)))))))))..)).)))..... ( -37.90, z-score =  -2.08, R)
>droSec1.super_8 1678023 115 + 3762037
AUGACUCAAUGC-GACUGAGUCAGCGGCAGGGGCUAGAAAUCGAGUGGCAAC-AGUG---GUUUCUUUUCGCCGGUGAGGUGGAAAGUUUUGCAGUUUGCCGCUUGGCAGACCCAAUUUA
.(((((((....-...)))))))((((((((.((..(((((((..((....)-).))---)))))((((((((.....)))))))).....))..))))))))((((.....)))).... ( -43.40, z-score =  -2.20, R)
>droSim1.chrX_random 5046752 115 + 5698898
AUGACUCAAUGC-GGCUGAGUCAGAGGCAGGGGCUAGAAAUCGAGUGGCAAC-AGUG---GUUUCUUUUCGCCAGUGAGGUGGAAAGUUUUGCAGUUUGCCGCUUGGCAGACCCAAUUUA
.(((((((....-...)))))))......(((.((.(...((((((((((((-.(..---(...(((((((((.....)))))))))..)..).).)))))))))))))).)))...... ( -42.60, z-score =  -2.09, R)
>consensus
AUGACUCAAUGC_GGCUGAGUCAG_GGCAGAGGCUAGAAAUCGAGUGGCAAC_AGUG___GUUUCUUUUCGCCAGUGAGGUGGAAAGUUUUGCAGUUUGCCGCUUGGCAGACCCAAUUUA
.(((((((........))))))).................(((((((((((...(((.......(((((((((.....)))))))))...)))...)))))))))))............. (-30.86 = -30.38 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:01:07 2011