Locus 14624

Sequence ID dm3.chrX
Location 14,433,877 – 14,434,021
Length 144
Max. P 0.965013
window20137 window20138

overview

Window 7

Location 14,433,877 – 14,434,021
Length 144
Sequences 5
Columns 150
Reading direction forward
Mean pairwise identity 80.90
Shannon entropy 0.34120
G+C content 0.34023
Mean single sequence MFE -31.42
Consensus MFE -15.21
Energy contribution -17.18
Covariance contribution 1.97
Combinations/Pair 1.15
Mean z-score -2.27
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.25
SVM RNA-class probability 0.614932
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14433877 144 + 22422827
UAAAUAAUACAAUCCCAAA-UUGAAAAUACUUAGGCCUUUUAAUGAAUACACUUAUUCAGAGUUUUCUAAUCCCGAACAUCACACCAAUGAUAUAUGAGC-----UGGUGGAACUUUCGUUUCUGGGAUUAGUGGCCUUUAAAGUUUUUC
...................-..(((((.(((((((((......((((((....)))))).......(((((((((.......(((((.............-----)))))((((....)))).))))))))).)))))...))))))))) ( -32.62, z-score =  -2.15, R)
>droEre2.scaffold_4690 6222626 126 - 18748788
UAAGUAAUAAAAUCCCAA--UUGAAAAUACUUGGCC------------------ACUCGGAGUUUUCUAAUCC-GUACAUCACGCCAGUGAUGUACUCGCCUG---GCUGGAACUUCCAUUUCCGGGAUUAGUGGCCUUUAAAGUUUUCC
..................--..((((((....((((------------------(((.(((.........)))-(((((((((....)))))))))...((((---(.(((.....)))...)))))...)))))))......)))))). ( -41.00, z-score =  -4.29, R)
>droYak2.chrX 8675745 146 + 21770863
UAAAUAAUAAUAUCUCAAAAUUGAAAAUACUUGGGCCAUUUCCUAAAUA--UUUAUUCACAGUUUUCUAAUCCCGUACAUCACACCAAUGAUAUAUGAGCCAUA--UGAGCAACUUUCGUUUCUGGCAUUAGUAGCCUUUAAAGUUUUGC
...............(((((((..(((((.(((((......))))).))--))).......(((..(((((..((((.((((......)))).)))).((((.(--((((.....)))))...))))))))).)))......))))))). ( -23.20, z-score =  -0.67, R)
>droSec1.super_20 1031810 149 + 1148123
UAAAUAAUACUAUUCCAAA-UUGAAAAUACUUAGGCCAUUUAAUGAAUACACUUAUUCAGAGUUUUCUAAUCCCGAACAUCACCCCAAUAAUAUAUGAGCAUGACUAGUAGAACUUUCAUUUCUGGGAUUAGUGGCCUUUAAAGUUUUUC
...................-..(((((.((((((((((.....((((((....)))))).......(((((((((.....)...............(((.((((..((.....)).))))))).))))))))))))))...))))))))) ( -29.70, z-score =  -2.18, R)
>droSim1.chrX 11121587 149 + 17042790
UAAAUAAUACUAUCCCAAA-UUAAAAAUACUUAGGCCAUUUAAUGAAUACACUUAUUCAGAGUUUUCUAAUCCCGAACAUCACACCAAUGAUAUAUGAGCAUGACUGGUAGAACUUUCAUUUCUGGGAUUAGUGGCCUUUAAAGUUUUUC
...................-....(((.((((((((((.....((((((....)))))).......(((((((((...((((......))))....(((.((((..(......)..))))))))))))))))))))))...)))).))). ( -30.60, z-score =  -2.07, R)
>consensus
UAAAUAAUACUAUCCCAAA_UUGAAAAUACUUAGGCCAUUUAAUGAAUACACUUAUUCAGAGUUUUCUAAUCCCGAACAUCACACCAAUGAUAUAUGAGCAUGA_UGGUGGAACUUUCAUUUCUGGGAUUAGUGGCCUUUAAAGUUUUUC
......................((((((....(((((......((((((....)))))).......((((((((....((((......)))).................((((.......)))))))))))).))))).....)))))). (-15.21 = -17.18 +   1.97)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,433,877 – 14,434,021
Length 144
Sequences 5
Columns 150
Reading direction reverse
Mean pairwise identity 80.90
Shannon entropy 0.34120
G+C content 0.34023
Mean single sequence MFE -36.18
Consensus MFE -24.77
Energy contribution -25.74
Covariance contribution 0.97
Combinations/Pair 1.23
Mean z-score -2.31
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.74
SVM RNA-class probability 0.965013
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14433877 144 - 22422827
GAAAAACUUUAAAGGCCACUAAUCCCAGAAACGAAAGUUCCACCA-----GCUCAUAUAUCAUUGGUGUGAUGUUCGGGAUUAGAAAACUCUGAAUAAGUGUAUUCAUUAAAAGGCCUAAGUAUUUUCAA-UUUGGGAUUGUAUUAUUUA
(((((((((...(((((.((((((((.(((((....))(((((((-----(...........)))))).))..))))))))))).......((((((....))))))......))))))))).)))))..-................... ( -38.50, z-score =  -3.23, R)
>droEre2.scaffold_4690 6222626 126 + 18748788
GGAAAACUUUAAAGGCCACUAAUCCCGGAAAUGGAAGUUCCAGC---CAGGCGAGUACAUCACUGGCGUGAUGUAC-GGAUUAGAAAACUCCGAGU------------------GGCCAAGUAUUUUCAA--UUGGGAUUUUAUUACUUA
(((((((((....(((((((..((((((...(((.....))).)---).)).))(((((((((....)))))))))-(((.........))).)))------------------)))))))).)))))..--.................. ( -39.80, z-score =  -2.86, R)
>droYak2.chrX 8675745 146 - 21770863
GCAAAACUUUAAAGGCUACUAAUGCCAGAAACGAAAGUUGCUCA--UAUGGCUCAUAUAUCAUUGGUGUGAUGUACGGGAUUAGAAAACUGUGAAUAAA--UAUUUAGGAAAUGGCCCAAGUAUUUUCAAUUUUGAGAUAUUAUUAUUUA
.............((((((((((.((.(((((....)))(((..--...))))).((((((((....)))))))).)).))))).....(.(((((...--.))))).)...)))))..((((((((.......))))))))........ ( -28.00, z-score =  -0.19, R)
>droSec1.super_20 1031810 149 - 1148123
GAAAAACUUUAAAGGCCACUAAUCCCAGAAAUGAAAGUUCUACUAGUCAUGCUCAUAUAUUAUUGGGGUGAUGUUCGGGAUUAGAAAACUCUGAAUAAGUGUAUUCAUUAAAUGGCCUAAGUAUUUUCAA-UUUGGAAUAGUAUUAUUUA
(((((((((...((((((((((((((((((.(....)))))....(((((.((((........)))))))))....)))))))).......((((((....)))))).....)))))))))).)))))..-................... ( -38.30, z-score =  -2.97, R)
>droSim1.chrX 11121587 149 - 17042790
GAAAAACUUUAAAGGCCACUAAUCCCAGAAAUGAAAGUUCUACCAGUCAUGCUCAUAUAUCAUUGGUGUGAUGUUCGGGAUUAGAAAACUCUGAAUAAGUGUAUUCAUUAAAUGGCCUAAGUAUUUUUAA-UUUGGGAUAGUAUUAUUUA
(((((((((...(((((((((((((((....)(((.(((.(((((((.(((......))).))))))).))).))))))))))).......((((((....)))))).....)))))))))).)))))..-................... ( -36.30, z-score =  -2.29, R)
>consensus
GAAAAACUUUAAAGGCCACUAAUCCCAGAAAUGAAAGUUCCACCA_UCAGGCUCAUAUAUCAUUGGUGUGAUGUUCGGGAUUAGAAAACUCUGAAUAAGUGUAUUCAUUAAAUGGCCUAAGUAUUUUCAA_UUUGGGAUAGUAUUAUUUA
(((((((((...(((((.((((((((.(.(((....))).)...............(((((((....)))))))..)))))))).......((((((....))))))......))))))))).)))))...................... (-24.77 = -25.74 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:43:42 2011