Locus 4715

Sequence ID dm3.chr2R
Location 15,159,867 – 15,159,972
Length 105
Max. P 0.983751
window6471 window6472

overview

Window 1

Location 15,159,867 – 15,159,972
Length 105
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 79.14
Shannon entropy 0.40608
G+C content 0.41890
Mean single sequence MFE -30.10
Consensus MFE -19.50
Energy contribution -22.47
Covariance contribution 2.96
Combinations/Pair 1.30
Mean z-score -2.32
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.14
SVM RNA-class probability 0.983751
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15159867 105 + 21146708
UUCUCUGAGUGUAGUGUGUAUCUUCUAGAUAGUAUUCGUAUUUUUGCCCUUCCGCCGCGUGAGUUUUGUGUAAACACUGGGUGGAAAGGGGAGAGAUAUCUCAAA-
.....((((.(((.(((.((.....)).))).)))..((((((((.((((((((((((....))...(((....)))..))))).))))).))))))))))))..- ( -32.90, z-score =  -2.87, R)
>droSim1.chr2R 13870311 105 + 19596830
UUCUCUGAGUGCAGUGUGUAUCUGCUAGAUAGUAUUCGUAUUUUUGCCCUUCCGCCGCGUGAGUUUUGUGUAAACACUGGGCGGAAAGGGGAGAGAUAUCUCUAA-
......(((.((((.......))))............((((((((.((((((((((((....))...(((....)))..))))).))))).)))))))))))...- ( -36.20, z-score =  -2.90, R)
>droSec1.super_1 12674483 105 + 14215200
UUCUCUGAGUGCAGUGUGUAUCUCCUAGAUAGUAUUCGUAUUUUUGCCCUUCCGCCGCGUGAGUUUUGUGUAAACACUGGGCGGAAAGGGGAGAGAUAUCUUUAA-
......((((((.((.((.......)).)).))))))((((((((.((((((((((((....))...(((....)))..))))).))))).))))))))......- ( -35.70, z-score =  -3.11, R)
>droYak2.chr2R 7120350 104 - 21139217
-UUUCUGAGUGUAGUGUGUAUCUGCUAGAUAGUAUUCGUAUUUUUGCCCUUCCGCCGCGUGCGUUUUGUGUAAACACUGGGUGGAAAGGGGAGAGAUAUCUCUAA-
-.....(((.((((.......))))............((((((((.((((((((((.((.(.((((.....)))).)))))))).))))).)))))))))))...- ( -30.20, z-score =  -1.75, R)
>droEre2.scaffold_4845 9363678 104 + 22589142
-UUUCCGAGUGUAGUGUGUAUCUGCUAGAUUGUAUUCGUAUUUUUGCCCUUCCGCCGCGUGAGUUUCGUGUAAACACUGAGAGGAAAGGGGAGAGAUAUCACUAA-
-....((((((((((.(((....)).).))))))))))(((((((.(((((((...((....))((((((....))).))).)).))))).))))))).......- ( -27.50, z-score =  -1.10, R)
>droGri2.scaffold_15112 3637651 88 + 5172618
---------------AUAUAAAUAUU---UGGUAGAUAUUUUUUUGCCCUUCCGUCAGUUGAAUUUUGUGUAAACAUUUGUCAGGCAGAGAAAAAAACUAAGUAUG
---------------......(((((---((((.....((((((((((((......)).(((....(((....)))....)))))))))))))...))))))))). ( -18.10, z-score =  -2.17, R)
>consensus
_UCUCUGAGUGUAGUGUGUAUCUGCUAGAUAGUAUUCGUAUUUUUGCCCUUCCGCCGCGUGAGUUUUGUGUAAACACUGGGCGGAAAGGGGAGAGAUAUCUCUAA_
......((((((.((.((.......)).)).))))))((((((((.((((((((((((....))...(((....)))..)))))).)))).))))))))....... (-19.50 = -22.47 +   2.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,159,867 – 15,159,972
Length 105
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 79.14
Shannon entropy 0.40608
G+C content 0.41890
Mean single sequence MFE -21.17
Consensus MFE -10.94
Energy contribution -11.19
Covariance contribution 0.25
Combinations/Pair 1.25
Mean z-score -1.91
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.53
SVM RNA-class probability 0.729881
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15159867 105 - 21146708
-UUUGAGAUAUCUCUCCCCUUUCCACCCAGUGUUUACACAAAACUCACGCGGCGGAAGGGCAAAAAUACGAAUACUAUCUAGAAGAUACACACUACACUCAGAGAA
-((((((..........(((((((.((..(((.............)))..)).)))))))...............((((.....)))).........))))))... ( -21.32, z-score =  -1.93, R)
>droSim1.chr2R 13870311 105 - 19596830
-UUAGAGAUAUCUCUCCCCUUUCCGCCCAGUGUUUACACAAAACUCACGCGGCGGAAGGGCAAAAAUACGAAUACUAUCUAGCAGAUACACACUGCACUCAGAGAA
-.........(((((..((((((((((..(((.............)))..)))))))))).....................((((.......))))....))))). ( -29.52, z-score =  -3.84, R)
>droSec1.super_1 12674483 105 - 14215200
-UUAAAGAUAUCUCUCCCCUUUCCGCCCAGUGUUUACACAAAACUCACGCGGCGGAAGGGCAAAAAUACGAAUACUAUCUAGGAGAUACACACUGCACUCAGAGAA
-.......(((((((..((((((((((..(((.............)))..)))))))))).........((......))..)))))))....(((....))).... ( -26.42, z-score =  -2.75, R)
>droYak2.chr2R 7120350 104 + 21139217
-UUAGAGAUAUCUCUCCCCUUUCCACCCAGUGUUUACACAAAACGCACGCGGCGGAAGGGCAAAAAUACGAAUACUAUCUAGCAGAUACACACUACACUCAGAAA-
-...(((..........(((((((.(((.((((((.....))))))..).)).)))))))...............((((.....)))).........))).....- ( -21.50, z-score =  -2.30, R)
>droEre2.scaffold_4845 9363678 104 - 22589142
-UUAGUGAUAUCUCUCCCCUUUCCUCUCAGUGUUUACACGAAACUCACGCGGCGGAAGGGCAAAAAUACGAAUACAAUCUAGCAGAUACACACUACACUCGGAAA-
-.(((((.(((((((..(((((((.((..(((.............)))..)).))))))).........((......)).)).)))))..)))))..........- ( -19.02, z-score =  -0.51, R)
>droGri2.scaffold_15112 3637651 88 - 5172618
CAUACUUAGUUUUUUUCUCUGCCUGACAAAUGUUUACACAAAAUUCAACUGACGGAAGGGCAAAAAAAUAUCUACCA---AAUAUUUAUAU---------------
........((((((((((((..(((.((..((.............))..)).))).)))).))))))))........---...........--------------- (  -9.22, z-score =  -0.12, R)
>consensus
_UUAGAGAUAUCUCUCCCCUUUCCGCCCAGUGUUUACACAAAACUCACGCGGCGGAAGGGCAAAAAUACGAAUACUAUCUAGCAGAUACACACUACACUCAGAGA_
.................(((((((.((..(((.............)))..)).))))))).............................................. (-10.94 = -11.19 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:34:34 2011