Locus 14892

Sequence ID dm3.chrX
Location 16,098,958 – 16,099,070
Length 112
Max. P 0.773564
window20515 window20516

overview

Window 5

Location 16,098,958 – 16,099,070
Length 112
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 79.13
Shannon entropy 0.29214
G+C content 0.48493
Mean single sequence MFE -35.25
Consensus MFE -17.95
Energy contribution -16.41
Covariance contribution -1.54
Combinations/Pair 1.32
Mean z-score -2.50
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.49
SVM RNA-class probability 0.716013
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16098958 112 + 22422827
GCAUCCG--AACAGACGUUCGAUAUACGAGUAUGUGGGACUUUGAAGGAAUCGCGAUGGGUCGCGUU-UCCCCUACUCCUC-CCAUCUCCUUCACUCGUGUCUAAAUUGAUAUUUU
..(((((--(((....)))))..((((((((..((((((.......((((.(((((....))))).)-)))........))-)))).......)))))))).......)))..... ( -32.16, z-score =  -1.76, R)
>droYak2.chrX 10245916 102 + 21770863
GCAUCCG--AACAGACGUUCGAUAUGCGAGUGUGUGGUAGUUGGAAGGAAUCGUGGAGGGCUGCCUCCUCCUUCAC------------CAUCCACUCGUGUCUAAAUUGAUAUUUU
((((.((--(((....)))))..))))(((((..((((.....((((((.....(((((....)))))))))))))------------))..)))))(((((......)))))... ( -39.70, z-score =  -3.85, R)
>droSec1.super_47 155794 116 + 216421
GCAUCCAGCAACAGACGUUCGAUAUACGAGUAUGUGGGACUUUGAAGGAAUCGCGGUGGGCCGCUUCCUCCUCCAUCGCUCUCCUUCUCCUUCACUCGUGUCUAAAUUGAUAUUUU
((.....)).........(((((((((((((....((((....((((((...((((((((...........))))))))..))))))))))..))))))))....)))))...... ( -33.90, z-score =  -1.89, R)
>consensus
GCAUCCG__AACAGACGUUCGAUAUACGAGUAUGUGGGACUUUGAAGGAAUCGCGGUGGGCCGCCUCCUCCUCCAC__CUC_CC_UCUCCUUCACUCGUGUCUAAAUUGAUAUUUU
..................(((((((((((((..(((((........(((...((((....))))....)))))))).................))))))))....)))))...... (-17.95 = -16.41 +  -1.54)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 16,098,958 – 16,099,070
Length 112
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 79.13
Shannon entropy 0.29214
G+C content 0.48493
Mean single sequence MFE -34.87
Consensus MFE -18.84
Energy contribution -19.73
Covariance contribution 0.90
Combinations/Pair 1.14
Mean z-score -2.46
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.773564
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16098958 112 - 22422827
AAAAUAUCAAUUUAGACACGAGUGAAGGAGAUGG-GAGGAGUAGGGGA-AACGCGACCCAUCGCGAUUCCUUCAAAGUCCCACAUACUCGUAUAUCGAACGUCUGUU--CGGAUGC
....((((.........(((((((..((.(((.(-(((((((...(..-..)((((....)))).))))))))...)))))...)))))))....(((((....)))--)))))). ( -36.70, z-score =  -2.66, R)
>droYak2.chrX 10245916 102 - 21770863
AAAAUAUCAAUUUAGACACGAGUGGAUG------------GUGAAGGAGGAGGCAGCCCUCCACGAUUCCUUCCAACUACCACACACUCGCAUAUCGAACGUCUGUU--CGGAUGC
...................(((((..((------------(((((((((((((....))))).....)))))).....))))..)))))((((.((((((....)))--))))))) ( -36.10, z-score =  -3.91, R)
>droSec1.super_47 155794 116 - 216421
AAAAUAUCAAUUUAGACACGAGUGAAGGAGAAGGAGAGCGAUGGAGGAGGAAGCGGCCCACCGCGAUUCCUUCAAAGUCCCACAUACUCGUAUAUCGAACGUCUGUUGCUGGAUGC
....((((....((((((((((((..((((((((((.(((.(((.(..(....)..)))).)))..)))))))....)))....))))))).........)))))......)))). ( -31.80, z-score =  -0.82, R)
>consensus
AAAAUAUCAAUUUAGACACGAGUGAAGGAGA_GG_GAG__GUGGAGGAGGAAGCGGCCCACCGCGAUUCCUUCAAAGUCCCACAUACUCGUAUAUCGAACGUCUGUU__CGGAUGC
....((((....((((((((((((..................(((((((...((((....))))..)))))))...(.....).))))))).........)))))......)))). (-18.84 = -19.73 +   0.90)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:48:57 2011