Locus 875

Sequence ID dm3.chr2L
Location 6,372,294 – 6,372,439
Length 145
Max. P 0.931034
window1181 window1182

overview

Window 1

Location 6,372,294 – 6,372,404
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.11
Shannon entropy 0.25066
G+C content 0.40472
Mean single sequence MFE -25.73
Consensus MFE -18.81
Energy contribution -19.41
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.33
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.36
SVM RNA-class probability 0.931034
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 6372294 110 - 23011544
CUUUACGGAAUAUCACAGCUGAUAAUAAAGCCAAUCACCACGAAUUAAGAAUCAGCUG-------AUUGAAUCAGCAUCAAAGCUCAGUGCUUUUUAAACCGUAAAC---UAAUCUAGAC
.(((((((.......((((((((...........................))))))))-------.(((((..(((((.........))))).))))).))))))).---.......... ( -22.23, z-score =  -2.50, R)
>droEre2.scaffold_4929 15298215 120 - 26641161
CUUUACGGAAUUCCACAGCUGAUAGUAGCGCCAAUCACCACGAAUCCGGAAUCAGCUGGGAAUUCAGGAGUUCAGCAUCAAAGCUCAGUGCUUCUUAAACCGUAAACACAUAAUCUUGAC
.(((((((((((((.((((((((.(.....)......((........)).)))))))))))))))((((((..(((......)))....)))))).....)))))).............. ( -33.90, z-score =  -3.21, R)
>droYak2.chr2L 15790173 109 + 22324452
CUUUACGGCAUUCUACAGCUGAUAACAGAGCCAAUCACCACGAAUCAAGAAUCAGCUG--------GUGGAGCAGCAUCAAAGCUCAGUGCUUUUUAAACCGUAAUC---CUAACUUAAC
..((((((..(((((((((((((....((..(.........)..))....))))))).--------)))))).......(((((.....))))).....))))))..---.......... ( -24.30, z-score =  -1.52, R)
>droSec1.super_5 4440223 113 - 5866729
CUUUACGGCAUUUCACAGCUGAUAAUAAAGCCAAUCACCACGAAUCAGGAAUCAGCUG-------AUGGAAUCAGCAUCAAAGCUCAGUGCUUUUUAAACCGUAAACUAAUAAUCUAGAC
.(((((((.((((((((((((((......(.....).((........)).))))))))-------.)))))).......(((((.....))))).....)))))))(((......))).. ( -25.10, z-score =  -2.46, R)
>droSim1.chr2L 6176448 113 - 22036055
CUUAACGGAAUUUCACAGCUGAUAAUAAAGCCAAUCACCACGAAUCCGGAAUCAGCUG-------AUGGAAUCAGCAUCAAAGCUCAGUGCUUUUUAAACCGUAAACUAAUAAUCUAGAC
....((((.((((((((((((((......(.....).((........)).))))))))-------.)))))).......(((((.....))))).....))))...(((......))).. ( -23.10, z-score =  -1.95, R)
>consensus
CUUUACGGAAUUUCACAGCUGAUAAUAAAGCCAAUCACCACGAAUCAGGAAUCAGCUG_______AUGGAAUCAGCAUCAAAGCUCAGUGCUUUUUAAACCGUAAAC__AUAAUCUAGAC
.(((((((.......((((((((...........................)))))))).....................(((((.....))))).....))))))).............. (-18.81 = -19.41 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 6,372,331 – 6,372,439
Length 108
Sequences 5
Columns 121
Reading direction reverse
Mean pairwise identity 74.06
Shannon entropy 0.42736
G+C content 0.42524
Mean single sequence MFE -24.00
Consensus MFE -12.81
Energy contribution -12.65
Covariance contribution -0.16
Combinations/Pair 1.20
Mean z-score -1.51
Structure conservation index 0.53
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.chr2L 6372331 108 - 23011544
------GUACAUUUACAUCGAUCUAAGGGCUCAUUUGCCGGCUUUACGGAAUAUCACAGCUGAUAAUAAAGCCAAUCACCACGAAUUAAGAAUCAGCUG-------AUUGAAUCAGCAUCA
------...........(((.......(((......)))(((((((.....(((((....))))).)))))))........)))...........((((-------((...)))))).... ( -24.20, z-score =  -1.97, R)
>droEre2.scaffold_4929 15298255 105 - 26641161
----------------AUACAUUUAGAUCAGUUCUGGCCGGCUUUACGGAAUUCCACAGCUGAUAGUAGCGCCAAUCACCACGAAUCCGGAAUCAGCUGGGAAUUCAGGAGUUCAGCAUCA
----------------.......((((.....))))((.((((((...(((((((.((((((((.(.....)......((........)).))))))))))))))).))))))..)).... ( -28.30, z-score =  -1.47, R)
>droYak2.chr2L 15790210 97 + 22324452
----------------AUACAUUUAGAUCGGUUUCUGCCGGCUUUACGGCAUUCUACAGCUGAUAACAGAGCCAAUCACCACGAAUCAAGAAUCAGCUG-------GUGGAG-CAGCAUCA
----------------.........((((.((((((((((......))))).....((((((((....((..(.........)..))....))))))))-------..))))-).).))). ( -25.50, z-score =  -1.54, R)
>droSec1.super_5 4440263 113 - 5866729
AUACAUUUACAUUUACAUU-AUCUAAGACUCAUUUUGCCGGCUUUACGGCAUUUCACAGCUGAUAAUAAAGCCAAUCACCACGAAUCAGGAAUCAGCUG-------AUGGAAUCAGCAUCA
...................-...............(((((......)))))(((((((((((((......(.....).((........)).))))))))-------.)))))......... ( -21.90, z-score =  -1.89, R)
>droSim1.chr2L 6176488 108 - 22036055
------AUACAUUUACAUCGAUCUAAGACUCAUUUUGCCGGCUUAACGGAAUUUCACAGCUGAUAAUAAAGCCAAUCACCACGAAUCCGGAAUCAGCUG-------AUGGAAUCAGCAUCA
------.............(((((.............(((......))).((((((((((((((......(.....).((........)).))))))))-------.)))))).)).))). ( -20.10, z-score =  -0.70, R)
>consensus
_______UACAUUUACAUACAUCUAAGACUCAUUUUGCCGGCUUUACGGAAUUUCACAGCUGAUAAUAAAGCCAAUCACCACGAAUCAGGAAUCAGCUG_______AUGGAAUCAGCAUCA
.....................((((............(((......))).......((((((((...........................))))))))........)))).......... (-12.81 = -12.65 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:21:08 2011