Locus 14871

Sequence ID dm3.chrX
Location 15,995,333 – 15,995,392
Length 59
Max. P 0.987875
window20479 window20480

overview

Window 9

Location 15,995,333 – 15,995,392
Length 59
Sequences 5
Columns 60
Reading direction forward
Mean pairwise identity 94.44
Shannon entropy 0.09919
G+C content 0.33452
Mean single sequence MFE -14.74
Consensus MFE -13.72
Energy contribution -13.24
Covariance contribution -0.48
Combinations/Pair 1.19
Mean z-score -2.63
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.30
SVM RNA-class probability 0.987875
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 15995333 59 + 22422827
UUUGUAUUUACCCCAGAUAGCAAUUA-GUGUAAUCGUUAUGGGUGAAUGAUGAUAUUAAA
....(((((((((..(((.(((....-.))).))).....)))))))))........... ( -13.10, z-score =  -2.30, R)
>droSim1.chrX_random 4129404 59 + 5698898
UUUGUGUUUACCCCAGAUAGCAAUUA-GUGUAAUCGUUAUGGGUGAAUGACGCUAUUAAA
...((((((((((..(((.(((....-.))).))).....)))))))).))......... ( -13.00, z-score =  -1.74, R)
>droSec1.super_47 53345 60 + 216421
UUUGUGUUUACCCCAGAUAGCAAUUAUGUGUAAUUGUUAUGGGUGAAUGACGAUAUUAAA
.((((((((((((...((((((((((....)))))))))))))))))).))))....... ( -18.90, z-score =  -4.55, R)
>droYak2.chrX 10143020 59 + 21770863
UUUGUAUUUACCCCAGAUAGCAAUUA-GUGUAAUCGUUGUGGGUGAAUGACGAUAUUAAA
.(((((((((((((((((.(((....-.))).)))..)).)))))))).))))....... ( -15.20, z-score =  -3.00, R)
>droEre2.scaffold_4690 7665080 59 - 18748788
UUUGUAUUUACCCCAGAUAGCAAUUA-GUGUAAUCGUUAUGGGUGAAUGACGGUACUAAA
.((((((((((((..(((.(((....-.))).))).....)))))))).))))....... ( -13.50, z-score =  -1.54, R)
>consensus
UUUGUAUUUACCCCAGAUAGCAAUUA_GUGUAAUCGUUAUGGGUGAAUGACGAUAUUAAA
.((((((((((((...(((((.((((....)))).))))))))))))).))))....... (-13.72 = -13.24 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 15,995,333 – 15,995,392
Length 59
Sequences 5
Columns 60
Reading direction reverse
Mean pairwise identity 94.44
Shannon entropy 0.09919
G+C content 0.33452
Mean single sequence MFE -7.62
Consensus MFE -7.14
Energy contribution -6.98
Covariance contribution -0.16
Combinations/Pair 1.10
Mean z-score -1.06
Structure conservation index 0.94
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.517210
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 15995333 59 - 22422827
UUUAAUAUCAUCAUUCACCCAUAACGAUUACAC-UAAUUGCUAUCUGGGGUAAAUACAAA
............(((.(((((((.((((((...-)))))).)))...)))).)))..... (  -7.00, z-score =  -1.22, R)
>droSim1.chrX_random 4129404 59 - 5698898
UUUAAUAGCGUCAUUCACCCAUAACGAUUACAC-UAAUUGCUAUCUGGGGUAAACACAAA
.........((......((((((.((((((...-)))))).))..))))......))... (  -6.80, z-score =  -0.42, R)
>droSec1.super_47 53345 60 - 216421
UUUAAUAUCGUCAUUCACCCAUAACAAUUACACAUAAUUGCUAUCUGGGGUAAACACAAA
.........((......((((((.((((((....)))))).))..))))......))... (  -7.80, z-score =  -1.66, R)
>droYak2.chrX 10143020 59 - 21770863
UUUAAUAUCGUCAUUCACCCACAACGAUUACAC-UAAUUGCUAUCUGGGGUAAAUACAAA
.........((.(((.((((.((..(((..((.-....))..))))))))).)))))... (  -8.30, z-score =  -1.54, R)
>droEre2.scaffold_4690 7665080 59 + 18748788
UUUAGUACCGUCAUUCACCCAUAACGAUUACAC-UAAUUGCUAUCUGGGGUAAAUACAAA
.........((.(((.(((((((.((((((...-)))))).)))...)))).)))))... (  -8.20, z-score =  -0.47, R)
>consensus
UUUAAUAUCGUCAUUCACCCAUAACGAUUACAC_UAAUUGCUAUCUGGGGUAAAUACAAA
.................((((...((((((....)))))).....))))........... ( -7.14 =  -6.98 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:48:28 2011