Locus 8605

Sequence ID dm3.chr3RHet
Location 1,643,992 – 1,644,087
Length 95
Max. P 0.997345
window11815 window11816

overview

Window 5

Location 1,643,992 – 1,644,087
Length 95
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 50.87
Shannon entropy 0.70680
G+C content 0.55666
Mean single sequence MFE -32.27
Consensus MFE -13.74
Energy contribution -15.63
Covariance contribution 1.90
Combinations/Pair 1.35
Mean z-score -1.30
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.29
SVM RNA-class probability 0.921623
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 1643992 95 + 2517507
CGGCAGGUGCUCCCUAAGGAUCGGUACUUGUACCAAUCCUGUGGAACAUCAUCUACGAUGGGAUAUUGGGCAUCAACAAGCCCAUGGGA-GUAGAG
.......(((((((..(((((.((((....)))).)))))(((((......))))).(((((...(((........))).)))))))))-)))... ( -35.60, z-score =  -2.51, R)
>droGri2.scaffold_15203 5885067 82 + 11997470
CAGCAGGAGUUCCACAGGGGUCGGUUGUAGGUCCACUGCUGUGGA---CGAGGUACU-CAGGCUUCAGCUGCCUCAGGGUUGCAGC----------
..(((((....))...((((.((((((.((((((((....)))))---)(((...))-)...)).)))))))))).....)))...---------- ( -31.10, z-score =  -0.61, R)
>triCas2.chrUn_114 46873 90 - 54736
-----GGGGUUCCACAGGGGUCGGUGCUCGCACCACUGCUAUGGAAUAUAAUGUAUGACAGUGUCCUGAG-ACUGUCGGUUGCGGAAGAUGUCGAG
-----...((((((.((.(((.((((....))))))).)).))))))........(((((...(((...(-((.....)))..)))...))))).. ( -30.10, z-score =  -0.76, R)
>consensus
C_GCAGGAGUUCCACAGGGGUCGGUACUAGCACCACUGCUGUGGAA_AUAAUGUACGACAGGAUACUGAG_ACUAACGGUUGCAGA_GA_GU_GAG
..........(((((((.(((.((((....))))))).)))))))....................((((((........))))))........... (-13.74 = -15.63 +   1.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,643,992 – 1,644,087
Length 95
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 50.87
Shannon entropy 0.70680
G+C content 0.55666
Mean single sequence MFE -29.40
Consensus MFE -11.15
Energy contribution -12.17
Covariance contribution 1.01
Combinations/Pair 1.41
Mean z-score -2.55
Structure conservation index 0.38
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.08
SVM RNA-class probability 0.997345
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3RHet 1643992 95 - 2517507
CUCUAC-UCCCAUGGGCUUGUUGAUGCCCAAUAUCCCAUCGUAGAUGAUGUUCCACAGGAUUGGUACAAGUACCGAUCCUUAGGGAGCACCUGCCG
.(((((-....(((((..(((((.....))))).))))).)))))...((((((..((((((((((....))))))))))...))))))....... ( -36.80, z-score =  -3.99, R)
>droGri2.scaffold_15203 5885067 82 - 11997470
----------GCUGCAACCCUGAGGCAGCUGAAGCCUG-AGUACCUCG---UCCACAGCAGUGGACCUACAACCGACCCCUGUGGAACUCCUGCUG
----------(((((.........)))))...(((..(-(((.....(---(((((....))))))(((((.........))))).))))..))). ( -26.50, z-score =  -1.77, R)
>triCas2.chrUn_114 46873 90 + 54736
CUCGACAUCUUCCGCAACCGACAGU-CUCAGGACACUGUCAUACAUUAUAUUCCAUAGCAGUGGUGCGAGCACCGACCCCUGUGGAACCCC-----
...................((((((-........))))))..........((((((((..((((((....)))).))..))))))))....----- ( -24.90, z-score =  -1.90, R)
>consensus
CUC_AC_UC_CCUGCAACCGUCAGU_CCCAGAACCCUGUCGUACAUCAU_UUCCACAGCAGUGGUACAAGAACCGACCCCUGUGGAACACCUGC_G
.....................(((((.......))))).............(((((((...(((((....)))))....))))))).......... (-11.15 = -12.17 +   1.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:48:41 2011