Locus 2805

Sequence ID dm3.chr2L
Location 22,490,044 – 22,490,148
Length 104
Max. P 0.679084
window3869 window3870

overview

Window 9

Location 22,490,044 – 22,490,148
Length 104
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 51.12
Shannon entropy 0.67011
G+C content 0.52726
Mean single sequence MFE -33.07
Consensus MFE -13.25
Energy contribution -12.71
Covariance contribution -0.54
Combinations/Pair 1.55
Mean z-score -1.08
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.21
SVM RNA-class probability 0.594883
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22490044 104 + 23011544
GCUCCCUCAAUUCUUAUUAGGGUGGCUUUCCUCUUCAUUUCAA-UGACGAUAUGAAG--UGGCGUCACCUCCACUAGUACUUCUAGGGUUGCAGUGGGACAGGUACG
..((((.(...........(((((((...((.((((((.((..-....)).))))))--.)).)))))))((.((((.....)))))).....).))))........ ( -31.70, z-score =  -1.78, R)
>droYak2.chrX_random 1069736 99 - 1802292
----CGUGGAUGUCUAGGGGAUCAACUCAAAUUAUUGUUUCGAGUGCUUUUGUGGGGGUUGACACCAGCGCCCCUGUUAUGCAGAGCAGUGCCUGCCGCUGGG----
----.((.(((.((((.((((...((((((((....)))).))))..)))).)))).))).)).((((((...(((.....))).((((...)))))))))).---- ( -32.10, z-score =  -0.04, R)
>droPer1.super_278 18121 99 + 27293
----CGUGAAUGUCCAGGGGGUCGAUUCCGAGUAGGGUUUCGAGUGCUUUUGUUGGGGUUGACCUCAACGCCCCUGUAAUACAGAGCAGAGCCUGUCGCUGAG----
----.((((.....((((((.((((..((......))..))))........(((((((....))))))).)))))).....(((.((...)))))))))....---- ( -35.40, z-score =  -1.41, R)
>consensus
____CGUGAAUGUCUAGGGGGUCGACUCAAAUUAUCGUUUCGAGUGCUUUUGUGGGGGUUGACAUCAACGCCCCUGUUAUACAGAGCAGUGCCUGCCGCUGGG____
.....(((......((((((((((((((((((.(..((.......))..).)))))))))))).......))))))....((((.(.....))))))))........ (-13.25 = -12.71 +  -0.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 22,490,044 – 22,490,148
Length 104
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 51.12
Shannon entropy 0.67011
G+C content 0.52726
Mean single sequence MFE -27.10
Consensus MFE -10.89
Energy contribution -9.46
Covariance contribution -1.42
Combinations/Pair 1.67
Mean z-score -1.17
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.40
SVM RNA-class probability 0.679084
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22490044 104 - 23011544
CGUACCUGUCCCACUGCAACCCUAGAAGUACUAGUGGAGGUGACGCCA--CUUCAUAUCGUCA-UUGAAAUGAAGAGGAAAGCCACCCUAAUAAGAAUUGAGGGAGC
........((((.......((((((.....)))).)).((((.(.((.--((((((.(((...-.))).)))))).))...).))))..............)))).. ( -29.00, z-score =  -2.02, R)
>droYak2.chrX_random 1069736 99 + 1802292
----CCCAGCGGCAGGCACUGCUCUGCAUAACAGGGGCGCUGGUGUCAACCCCCACAAAAGCACUCGAAACAAUAAUUUGAGUUGAUCCCCUAGACAUCCACG----
----..(((.(((((...))))))))......(((((.(((.(((........)))...)))(((((((.......)))))))....)))))...........---- ( -25.60, z-score =  -0.47, R)
>droPer1.super_278 18121 99 - 27293
----CUCAGCGACAGGCUCUGCUCUGUAUUACAGGGGCGUUGAGGUCAACCCCAACAAAAGCACUCGAAACCCUACUCGGAAUCGACCCCCUGGACAUUCACG----
----.......((((((...)).))))....((((((.((((.((....)).))))........((((..((......))..)))).))))))..........---- ( -26.70, z-score =  -1.00, R)
>consensus
____CCCAGCGACAGGCACUGCUCUGAAUAACAGGGGCGCUGACGUCAACCCCCACAAAAGCACUCGAAACAAUAAUCAGAGUCGACCCCCUAGACAUUCACG____
.........(((((((......)))))....((((((.(((((.......................................)))))))))))........)).... (-10.89 =  -9.46 +  -1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:58:24 2011