Locus 11186

Sequence ID dm3.chr3R
Location 19,277,965 – 19,278,071
Length 106
Max. P 0.976989
window15364 window15365

overview

Window 4

Location 19,277,965 – 19,278,071
Length 106
Sequences 8
Columns 113
Reading direction forward
Mean pairwise identity 80.22
Shannon entropy 0.38538
G+C content 0.31899
Mean single sequence MFE -26.08
Consensus MFE -15.07
Energy contribution -15.58
Covariance contribution 0.52
Combinations/Pair 1.46
Mean z-score -2.44
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.77
SVM RNA-class probability 0.966742
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 19277965 106 + 27905053
AGUGCAGGGUGCUAAAUUUUAUUGCUAAAUUAUUAAUUGCAAUAAUAUUUAGCUGCAAUCUGUUUCGCAGAUCUAUAUGUUUUUAA--UUUUCUAUUUGGCUCUGGGG-----
....(((((((((((((.(((((((.............))))))).)))))))....(((((.....)))))..............--...........))))))...----- ( -26.32, z-score =  -2.43, R)
>droSim1.chr3R 19097924 105 + 27517382
AGUCCAGGGUGCUAAAUUUUAUUGCUAAAUUAUUAAUUGCAAUAAUAUUUAGCUGCAAUCUGUUUCGCAGAUCUAUAUGUUUUUAA--UUUUCGGUUUU-CUCUGGGG-----
..(((((((.(((((((.(((((((.............))))))).)))))))....(((((.....)))))..............--...........-))))))).----- ( -27.72, z-score =  -3.85, R)
>droSec1.super_0 19640742 106 + 21120651
AGUCCAGGGUGCUAAAUUUUAUUGCUAAAUUAUUAAUUGCAAUAAUAUUUAGCUGCAAUCUGUUUCGCAGAUCUAUAUGUUUUUAA--UUUUCUGUUUGGCUCUGGGG-----
..(((((((((((((((.(((((((.............))))))).)))))))....(((((.....)))))..............--...........)))))))).----- ( -30.12, z-score =  -3.93, R)
>droYak2.chr3R 20160828 100 + 28832112
AGUGCAGGGUGCUAAAUUUUAUUGCUAAAUUAUUAAUUGCAAUACUAUUUACCUGCAAUCUGUUUCGCAGAUCUAUAUGUUUUUAA--UUUUCUGUUGCGCU-----------
(((((((.(((((((((..((((((.............))))))..)))))...)))(((((.....)))))..............--.....).)))))))----------- ( -20.72, z-score =  -1.24, R)
>droEre2.scaffold_4820 1698643 106 - 10470090
AGUGCAGGGUGCUAAAUUUUAUUGCUUAAUUAUUAAUUGCAAUAAUAUUUAGCCGCAAUCUCUUUCGCAGAUCUAGAUGUUUUUAA--UUUUCUGUUUCGCUCUGCGG-----
..(((((((((((((((.(((((((.............))))))).))))))).............(((((..((((....)))).--...)))))...)))))))).----- ( -29.42, z-score =  -3.54, R)
>droAna3.scaffold_13340 3421490 107 - 23697760
GACGUCGGGUGCUAAAUUUUAUUGCUAAAUUAUUAAUUGCAAUCAUAUUUAGUCGCAAUCU-UUUGGCGGAUCUAUAUGUUUUUUAAUUUUUCUGCUUGGCUUGGGGU-----
.((.(((((((((((((...(((((.............)))))...)))))))........-...((((((....................))))))..)))))).))----- ( -20.77, z-score =  -0.95, R)
>dp4.chr2 2761329 113 + 30794189
GGCGCAGAGUGGCAACUUUUAUUGCUAAAUUAUUAAUUGCAAUAAUAUUUAGCUGCAAUCUUUCGGGUGUAUCUAUAUAUUUUCUGUAAUAUAUUUUCUGCUUUGUGUAGAGU
.((((((((((((((......))))).........((((((..(((((.(((.((((..(....)..)))).))).)))))...)))))).........)))))))))..... ( -26.80, z-score =  -1.80, R)
>droPer1.super_7 2854586 113 - 4445127
GGCGCAGAGUGGCAACUUUUAUUGCUAAAUUAUUAAUUGCAAUAAUAUUUAGCUGCAAUCUUUCGGGUGUAUCUAUAUAUUUUCUGUAAUAUAUUUUCUGCUUUGUGUAGAGU
.((((((((((((((......))))).........((((((..(((((.(((.((((..(....)..)))).))).)))))...)))))).........)))))))))..... ( -26.80, z-score =  -1.80, R)
>consensus
AGUGCAGGGUGCUAAAUUUUAUUGCUAAAUUAUUAAUUGCAAUAAUAUUUAGCUGCAAUCUGUUUCGCAGAUCUAUAUGUUUUUAA__UUUUCUGUUUGGCUCUGGGG_____
..((((((((..(((((.(((((((.............))))))).))))).((((..........)))).............................))))))))...... (-15.07 = -15.58 +   0.52)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,277,965 – 19,278,071
Length 106
Sequences 8
Columns 113
Reading direction reverse
Mean pairwise identity 80.22
Shannon entropy 0.38538
G+C content 0.31899
Mean single sequence MFE -21.27
Consensus MFE -7.77
Energy contribution -8.38
Covariance contribution 0.61
Combinations/Pair 1.18
Mean z-score -3.48
Structure conservation index 0.37
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.96
SVM RNA-class probability 0.976989
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 19277965 106 - 27905053
-----CCCCAGAGCCAAAUAGAAAA--UUAAAAACAUAUAGAUCUGCGAAACAGAUUGCAGCUAAAUAUUAUUGCAAUUAAUAAUUUAGCAAUAAAAUUUAGCACCCUGCACU
-----...(((..............--.............((((((.....))))))...(((((((.(((((((.............))))))).)))))))...))).... ( -21.02, z-score =  -3.77, R)
>droSim1.chr3R 19097924 105 - 27517382
-----CCCCAGAG-AAAACCGAAAA--UUAAAAACAUAUAGAUCUGCGAAACAGAUUGCAGCUAAAUAUUAUUGCAAUUAAUAAUUUAGCAAUAAAAUUUAGCACCCUGGACU
-----..((((..-...........--.............((((((.....))))))...(((((((.(((((((.............))))))).)))))))...))))... ( -25.02, z-score =  -5.89, R)
>droSec1.super_0 19640742 106 - 21120651
-----CCCCAGAGCCAAACAGAAAA--UUAAAAACAUAUAGAUCUGCGAAACAGAUUGCAGCUAAAUAUUAUUGCAAUUAAUAAUUUAGCAAUAAAAUUUAGCACCCUGGACU
-----..((((..............--.............((((((.....))))))...(((((((.(((((((.............))))))).)))))))...))))... ( -25.02, z-score =  -5.23, R)
>droYak2.chr3R 20160828 100 - 28832112
-----------AGCGCAACAGAAAA--UUAAAAACAUAUAGAUCUGCGAAACAGAUUGCAGGUAAAUAGUAUUGCAAUUAAUAAUUUAGCAAUAAAAUUUAGCACCCUGCACU
-----------..............--.............((((((.....))))))((((((((((..((((((.............))))))..)))))....)))))... ( -19.72, z-score =  -2.15, R)
>droEre2.scaffold_4820 1698643 106 + 10470090
-----CCGCAGAGCGAAACAGAAAA--UUAAAAACAUCUAGAUCUGCGAAAGAGAUUGCGGCUAAAUAUUAUUGCAAUUAAUAAUUAAGCAAUAAAAUUUAGCACCCUGCACU
-----..((((.((.....(((...--.........))).(((((.(....)))))))).(((((((.(((((((.............))))))).)))))))...))))... ( -27.12, z-score =  -4.25, R)
>droAna3.scaffold_13340 3421490 107 + 23697760
-----ACCCCAAGCCAAGCAGAAAAAUUAAAAAACAUAUAGAUCCGCCAAA-AGAUUGCGACUAAAUAUGAUUGCAAUUAAUAAUUUAGCAAUAAAAUUUAGCACCCGACGUC
-----............((................................-.(((((((((.......).)))))))).....((((....)))).....)).......... (  -9.80, z-score =  -0.48, R)
>dp4.chr2 2761329 113 - 30794189
ACUCUACACAAAGCAGAAAAUAUAUUACAGAAAAUAUAUAGAUACACCCGAAAGAUUGCAGCUAAAUAUUAUUGCAAUUAAUAAUUUAGCAAUAAAAGUUGCCACUCUGCGCC
............(((((..(((((((......))))))).........(....)...((((((.....(((((((.............))))))).))))))...)))))... ( -21.22, z-score =  -3.04, R)
>droPer1.super_7 2854586 113 + 4445127
ACUCUACACAAAGCAGAAAAUAUAUUACAGAAAAUAUAUAGAUACACCCGAAAGAUUGCAGCUAAAUAUUAUUGCAAUUAAUAAUUUAGCAAUAAAAGUUGCCACUCUGCGCC
............(((((..(((((((......))))))).........(....)...((((((.....(((((((.............))))))).))))))...)))))... ( -21.22, z-score =  -3.04, R)
>consensus
_____CCCCAGAGCAAAACAGAAAA__UUAAAAACAUAUAGAUCUGCGAAACAGAUUGCAGCUAAAUAUUAUUGCAAUUAAUAAUUUAGCAAUAAAAUUUAGCACCCUGCACU
........................................................(((((.(((((.(((((((.............))))))).))))).....))))).. ( -7.77 =  -8.38 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:37:58 2011