Locus 15473

Sequence ID dm3.chrX
Location 19,248,566 – 19,248,702
Length 136
Max. P 0.919426
window21334 window21335

overview

Window 4

Location 19,248,566 – 19,248,686
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Shannon entropy 0.06122
G+C content 0.36111
Mean single sequence MFE -22.08
Consensus MFE -20.67
Energy contribution -20.57
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -1.14
Structure conservation index 0.94
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chrX 19248566 120 - 22422827
AUUUAAUGUGCCAUCUGCAAGGGUAUAUAACCUGAAAUAAGAACAGAGAAAAAGUUAAGUUUCUCUUCUGUUCGCUGUCUUCUAAUUUCUGUUCGUGCUUUUGUUCUUCCCUUACUGGUU
.........((((...((((((((((..(((..(((((.(((((((.(((.(((..........)))...))).))))..))).))))).))).))))))))))...........)))). ( -21.94, z-score =  -0.74, R)
>droSec1.super_8 1542660 120 - 3762037
AUUCAACAUGCCCUUUGCAAGGGUAUAUAACCUGAAAUAAGAACAGAAAAAAAGUUAAGUUUCUCUUCUGUUCGCUGUCUUCUAAUUUCUGUUCGUGCUUUUGUUCCUCCAUUACUGGUU
.......(((((((.....)))))))..((((.(......(((((((((..(((...(((..(......)...)))..)))....)))))))))(.((....)).)........).)))) ( -22.20, z-score =  -1.28, R)
>droSim1.chrX 14874134 120 - 17042790
AUUCAACAUGCCCUCUGCAAGGGUAUAUAACCUGAAAUAAGAACAGAAAAAAAGUUAAGUUUCUCUUCUGUUCGCUGUCUUCUAAUUUCUGUUCGUGCUUUUGUUCCUCCAUUACUGGUU
.......(((((((.....)))))))..((((.(......(((((((((..(((...(((..(......)...)))..)))....)))))))))(.((....)).)........).)))) ( -22.10, z-score =  -1.39, R)
>consensus
AUUCAACAUGCCCUCUGCAAGGGUAUAUAACCUGAAAUAAGAACAGAAAAAAAGUUAAGUUUCUCUUCUGUUCGCUGUCUUCUAAUUUCUGUUCGUGCUUUUGUUCCUCCAUUACUGGUU
.......(((((((.....)))))))..((((.(......(((((((((..(((...(((..(......)...)))..)))....)))))))))(.((....)).)........).)))) (-20.67 = -20.57 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,248,588 – 19,248,702
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.62
Shannon entropy 0.25958
G+C content 0.34616
Mean single sequence MFE -26.33
Consensus MFE -17.66
Energy contribution -18.85
Covariance contribution 1.19
Combinations/Pair 1.11
Mean z-score -2.46
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.27
SVM RNA-class probability 0.919426
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19248588 114 + 22422827
GCACGAACAGAAAUUAGAAGACAGCGAACAGAAGAGAAACUUAACUUUUUCUCUGUUCUUAUUUCAGGUUAUAUACCCUUGCAGAUGGCACAUUAAAUUCGGUAUAUCGG-AAUA-----
...(((.....(((..((((.....(((((((.((((((......)))))))))))))...))))..))).((((((......((((...))))......))))))))).-....----- ( -21.40, z-score =  -0.91, R)
>droEre2.scaffold_4690 9501981 120 + 18748788
GCACGACAAGGAAUUAGAAGACAGCGAACAGAAGAGAAACUUAAUUUUUUUUCUGUUCUUGUUUCAGGUUUUACACUCUUACAGAGAGUACAUUGGUUUACGUAUGCAAGGUACACAUAA
(((..((..(((((..((.(((((.((((((((((((((.....)))))))))))))))))))))..)))))..((((((...))))))............)).)))............. ( -29.30, z-score =  -2.73, R)
>droSec1.super_8 1542682 114 + 3762037
GCACGAACAGAAAUUAGAAGACAGCGAACAGAAGAGAAACUUAACUUUUUUUCUGUUCUUAUUUCAGGUUAUAUACCCUUGCAAAGGGCAUGUUGAAUUCUAUAUAUCAC-UAUA-----
.........((...(((((..(((((((((((((((((.......))))))))))))).................((((.....))))...))))..)))))....))..-....----- ( -27.10, z-score =  -3.13, R)
>droSim1.chrX 14874156 114 + 17042790
GCACGAACAGAAAUUAGAAGACAGCGAACAGAAGAGAAACUUAACUUUUUUUCUGUUCUUAUUUCAGGUUAUAUACCCUUGCAGAGGGCAUGUUGAAUUCUAUAUAUCAU-UAUU-----
.........((...(((((..(((((((((((((((((.......))))))))))))).................(((((...)))))...))))..)))))....))..-....----- ( -27.50, z-score =  -3.08, R)
>consensus
GCACGAACAGAAAUUAGAAGACAGCGAACAGAAGAGAAACUUAACUUUUUUUCUGUUCUUAUUUCAGGUUAUAUACCCUUGCAGAGGGCACAUUGAAUUCUAUAUAUCAG_UAUA_____
..............(((((..(((((((((((((((((.......))))))))))))).................(((((...)))))...))))..))))).................. (-17.66 = -18.85 +   1.19)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:08 2011