Locus 3749

Sequence ID dm3.chr2R
Location 7,613,486 – 7,613,581
Length 95
Max. P 0.922301
window5136 window5137

overview

Window 6

Location 7,613,486 – 7,613,581
Length 95
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 72.46
Shannon entropy 0.46562
G+C content 0.33552
Mean single sequence MFE -19.36
Consensus MFE -8.25
Energy contribution -9.78
Covariance contribution 1.53
Combinations/Pair 1.09
Mean z-score -2.40
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.29
SVM RNA-class probability 0.922301
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 7613486 95 + 21146708
GCAGCAGCAACAACCUAAUAUUGAAAACCCUAACGAAAAUAUUAAUGUUGUUAACAAUAAUCAGAAUCAUAACGAUGGUGGUCUGCUGACAAACA--------------------
.((((((.((((((.(((((((...............)))))))..)))))).......((((..(((.....)))..)))))))))).......-------------------- ( -19.16, z-score =  -2.32, R)
>droSim1.chr2R 6137465 95 + 19596830
GCAGCAGCAACAACCUAAUAUUGAAAACCCUAACGAAAAUAUUAAUGUUGUUAACAAUAAUCAGAAUCAUAACGAUGGUGGGCUGCUGACAAACA--------------------
.(((((((((((((.(((((((...............)))))))..))))))........(((..(((.....)))..)))))))))).......-------------------- ( -23.06, z-score =  -3.51, R)
>droEre2.scaffold_4845 4405494 95 - 22589142
GCAGCAGCAACAACCUAAUAUUGAGAACCCUAACGAAAAUAUUAACGUUGUUAACAAUAAUCAGAAUCAUAACGAUGGUGGGCUGCUGACAAACA--------------------
.(((((((((((((.(((((((..(........)...)))))))..))))))........(((..(((.....)))..)))))))))).......-------------------- ( -23.30, z-score =  -3.53, R)
>droPer1.super_31 73031 89 - 935084
UCAGCAACAACAACCUAAUAUUGAUAACUAUAAUGCAAAUAUUAACGUUGUUAACGAUA------ACGAUAACGAUAACGGGCUGCUGAUCACUA--------------------
((((((.(((((((.(((((((...............)))))))..))))))..((.((------.((....)).)).)).).))))))......-------------------- ( -16.26, z-score =  -2.64, R)
>droWil1.scaffold_181009 3213495 113 - 3585778
GCAACAAGAACAACCUAAUCUUGAUAAUUUAAAUGCAAAUAUUAAUGUUGUUAACGAGAAUCAACAUCAUCAUAAUGAUGA--UGAAGAAAAUUAUAAUUUGCUGCUGUCAAAUA
(((.(((((.........)))))...........((((((..((((.(((....)))...((..(((((((.....)))))--))..))..))))..)))))))))......... ( -21.00, z-score =  -1.97, R)
>droVir3.scaffold_12875 15317358 95 - 20611582
GAUACAACAACAACCUAAUAUUAAUAACUAUAAUGCAAAUAUUAAUGUUGUUUACAAUAAUCGCAACGAUAAUAAUGCGGCGCUGCAGCCCAAUC--------------------
..................................(((..(((((.((((((...........)))))).))))).)))(((......))).....-------------------- ( -13.40, z-score =  -0.42, R)
>consensus
GCAGCAACAACAACCUAAUAUUGAUAACCCUAACGAAAAUAUUAAUGUUGUUAACAAUAAUCAGAAUCAUAACGAUGGUGGGCUGCUGACAAACA____________________
.(((((..((((((.(((((((...............)))))))..)))))).............(((((....)))))....)))))........................... ( -8.25 =  -9.78 +   1.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,613,486 – 7,613,581
Length 95
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 72.46
Shannon entropy 0.46562
G+C content 0.33552
Mean single sequence MFE -20.70
Consensus MFE -11.58
Energy contribution -12.44
Covariance contribution 0.86
Combinations/Pair 1.19
Mean z-score -1.25
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.13
SVM RNA-class probability 0.557117
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 7613486 95 - 21146708
--------------------UGUUUGUCAGCAGACCACCAUCGUUAUGAUUCUGAUUAUUGUUAACAACAUUAAUAUUUUCGUUAGGGUUUUCAAUAUUAGGUUGUUGCUGCUGC
--------------------.......((((((((.((((..(((..(((((((((...((((((.....)))))).....)))))))))...)))..).))).))..)))))). ( -18.00, z-score =  -0.33, R)
>droSim1.chr2R 6137465 95 - 19596830
--------------------UGUUUGUCAGCAGCCCACCAUCGUUAUGAUUCUGAUUAUUGUUAACAACAUUAAUAUUUUCGUUAGGGUUUUCAAUAUUAGGUUGUUGCUGCUGC
--------------------.......(((((((..((((..(((..(((((((((...((((((.....)))))).....)))))))))...)))..).)))....))))))). ( -19.90, z-score =  -0.99, R)
>droEre2.scaffold_4845 4405494 95 + 22589142
--------------------UGUUUGUCAGCAGCCCACCAUCGUUAUGAUUCUGAUUAUUGUUAACAACGUUAAUAUUUUCGUUAGGGUUCUCAAUAUUAGGUUGUUGCUGCUGC
--------------------.......(((((((..((.(((..((((((((((((...(((((((...))))))).....)))))))))....)))...))).)).))))))). ( -21.80, z-score =  -1.51, R)
>droPer1.super_31 73031 89 + 935084
--------------------UAGUGAUCAGCAGCCCGUUAUCGUUAUCGU------UAUCGUUAACAACGUUAAUAUUUGCAUUAUAGUUAUCAAUAUUAGGUUGUUGUUGCUGA
--------------------(((..(.((((((((((((...((((.((.------...)).)))))))).(((((((.((......))....))))))))))))))))..))). ( -21.90, z-score =  -2.79, R)
>droWil1.scaffold_181009 3213495 113 + 3585778
UAUUUGACAGCAGCAAAUUAUAAUUUUCUUCA--UCAUCAUUAUGAUGAUGUUGAUUCUCGUUAACAACAUUAAUAUUUGCAUUUAAAUUAUCAAGAUUAGGUUGUUCUUGUUGC
.........(((((((..........((..((--(((((.....)))))))..))........((((((.(((((.((((.((.......))))))))))))))))).))))))) ( -23.10, z-score =  -1.78, R)
>droVir3.scaffold_12875 15317358 95 + 20611582
--------------------GAUUGGGCUGCAGCGCCGCAUUAUUAUCGUUGCGAUUAUUGUAAACAACAUUAAUAUUUGCAUUAUAGUUAUUAAUAUUAGGUUGUUGUUGUAUC
--------------------........((((((..((((..........)))).........((((((.((((((((.((......))....)))))))))))))))))))).. ( -19.50, z-score =  -0.12, R)
>consensus
____________________UAUUUGUCAGCAGCCCACCAUCGUUAUGAUUCUGAUUAUUGUUAACAACAUUAAUAUUUGCAUUAGAGUUAUCAAUAUUAGGUUGUUGCUGCUGC
...........................(((((((...........(((((.......))))).((((((.((((((((...............))))))))))))))))))))). (-11.58 = -12.44 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:15:59 2011