Locus 295

Sequence ID dm3.chr2L
Location 2,125,638 – 2,125,739
Length 101
Max. P 0.959917
window402 window403

overview

Window 2

Location 2,125,638 – 2,125,739
Length 101
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 77.25
Shannon entropy 0.44233
G+C content 0.32928
Mean single sequence MFE -19.32
Consensus MFE -10.63
Energy contribution -11.69
Covariance contribution 1.06
Combinations/Pair 1.35
Mean z-score -2.20
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.67
SVM RNA-class probability 0.959917
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 2125638 101 + 23011544
ACCAAUUACUUAAUUAGCUGGGAUCAUU--GCCAAAUUGUCUUGAUUGCCAGUUUUAUUCUAACAAUUAAGACAAUUAUAACGUCAAUUAACCCGAUUCCUGU
................((.((((((...--....((((((((((((((..((.......))..)))))))))))))).....((......))..)))))).)) ( -22.30, z-score =  -3.46, R)
>droSim1.chr2L_random 111125 101 + 909653
ACCCAUUACUUAAUUAGCUGGGAUCAUU--GCCAAAUUGUCUUGAUUGUCAGUUUUAUUCUAACAAUUAAGACAAUUAUAACGUCAAUUAACCCGAUUCCUGU
................((.((((((...--....(((((((((((((((.((.......)).))))))))))))))).....((......))..)))))).)) ( -24.70, z-score =  -4.29, R)
>droSec1.super_14 2055148 101 + 2068291
ACCCAUUACUUAAUUAGCUGGGAUCAUU--GCCAAAUUGUCUUGAUUGUCAGUUUUAUUCUAACAAUUAAGACAAUUAUAACGUCAAUUAACCCGAUUCCUGU
................((.((((((...--....(((((((((((((((.((.......)).))))))))))))))).....((......))..)))))).)) ( -24.70, z-score =  -4.29, R)
>droYak2.chr2L 2097031 95 + 22324452
AGCCAUUACUUAAUUAGCUGGGAUCAGU--GCCAAAUUGUCUUAAGUGCCAACUUUAUUCUAACAAUUAAGACAA------CGUCAAUUAUCCCGAUUUCUGU
..................((((((.(((--......(((((((((.((...............)).)))))))))------.....)))))))))........ ( -15.36, z-score =  -0.68, R)
>droEre2.scaffold_4929 2160038 101 + 26641161
ACCCAUUACUUAAUUAGCUAGGUUCGUU--GCCAAAUUGUCGUGAUUGCCAACUUUAUUCUAACAAUUAAGACAAUUAUUACGUCAAUUUAGUCGAGUUCUGU
...((..(((..(((((...(((.....--))).(((((((.((((((...............)))))).)))))))...........)))))..)))..)). ( -18.16, z-score =  -1.57, R)
>droAna3.scaffold_12916 9832715 103 - 16180835
ACCUAUUAUUUGACUCAUUUGGAUCAUUCUGCAGAUACGUUCUCAUUACUGUCACAGUUAUGACAAUUACAUUGACAAUUAUUAUAGUUAAAGCGAUUACUUU
........(((((((.(((((.(......).)))))..(((.((((.((((...)))).)))).)))..................)))))))........... ( -10.70, z-score =   1.08, R)
>consensus
ACCCAUUACUUAAUUAGCUGGGAUCAUU__GCCAAAUUGUCUUGAUUGCCAGCUUUAUUCUAACAAUUAAGACAAUUAUAACGUCAAUUAACCCGAUUCCUGU
................((.((((((.........((((((((((((((...............)))))))))))))).....(........)..)))))).)) (-10.63 = -11.69 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,125,638 – 2,125,739
Length 101
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 77.25
Shannon entropy 0.44233
G+C content 0.32928
Mean single sequence MFE -22.97
Consensus MFE -11.39
Energy contribution -12.20
Covariance contribution 0.81
Combinations/Pair 1.38
Mean z-score -2.14
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.18
SVM RNA-class probability 0.905487
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 2125638 101 - 23011544
ACAGGAAUCGGGUUAAUUGACGUUAUAAUUGUCUUAAUUGUUAGAAUAAAACUGGCAAUCAAGACAAUUUGGC--AAUGAUCCCAGCUAAUUAAGUAAUUGGU
.........(((...((((.......(((((((((.((((((((.......)))))))).)))))))))...)--)))...))).(((((((....))))))) ( -27.90, z-score =  -3.67, R)
>droSim1.chr2L_random 111125 101 - 909653
ACAGGAAUCGGGUUAAUUGACGUUAUAAUUGUCUUAAUUGUUAGAAUAAAACUGACAAUCAAGACAAUUUGGC--AAUGAUCCCAGCUAAUUAAGUAAUGGGU
......((((.(((....)))((((.(((((((((.((((((((.......)))))))).)))))))))))))--..))))(((((((.....)))..)))). ( -25.90, z-score =  -3.04, R)
>droSec1.super_14 2055148 101 - 2068291
ACAGGAAUCGGGUUAAUUGACGUUAUAAUUGUCUUAAUUGUUAGAAUAAAACUGACAAUCAAGACAAUUUGGC--AAUGAUCCCAGCUAAUUAAGUAAUGGGU
......((((.(((....)))((((.(((((((((.((((((((.......)))))))).)))))))))))))--..))))(((((((.....)))..)))). ( -25.90, z-score =  -3.04, R)
>droYak2.chr2L 2097031 95 - 22324452
ACAGAAAUCGGGAUAAUUGACG------UUGUCUUAAUUGUUAGAAUAAAGUUGGCACUUAAGACAAUUUGGC--ACUGAUCCCAGCUAAUUAAGUAAUGGCU
.........(((((...((..(------(((((((((.((((((.......)))))).))))))))))....)--)...)))))(((((.........))))) ( -25.20, z-score =  -2.73, R)
>droEre2.scaffold_4929 2160038 101 - 26641161
ACAGAACUCGACUAAAUUGACGUAAUAAUUGUCUUAAUUGUUAGAAUAAAGUUGGCAAUCACGACAAUUUGGC--AACGAACCUAGCUAAUUAAGUAAUGGGU
.....(((((........((((.......))))(((((((((((......((((.......))))..((((..--..)))).))))).))))))....))))) ( -19.00, z-score =  -0.98, R)
>droAna3.scaffold_12916 9832715 103 + 16180835
AAAGUAAUCGCUUUAACUAUAAUAAUUGUCAAUGUAAUUGUCAUAACUGUGACAGUAAUGAGAACGUAUCUGCAGAAUGAUCCAAAUGAGUCAAAUAAUAGGU
(((((....)))))..((((..((.(((.(......((((((((....))))))))..((.((.(((.((....))))).)))).....).))).)))))).. ( -13.90, z-score =   0.60, R)
>consensus
ACAGGAAUCGGGUUAAUUGACGUUAUAAUUGUCUUAAUUGUUAGAAUAAAACUGGCAAUCAAGACAAUUUGGC__AAUGAUCCCAGCUAAUUAAGUAAUGGGU
..........................(((((((((.((((((((.......)))))))).)))))))))............(((((((.....)))..)))). (-11.39 = -12.20 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:10:15 2011