Locus 6073

Sequence ID dm3.chr3L
Location 3,463,912 – 3,464,009
Length 97
Max. P 0.936471
window8361 window8362

overview

Window 1

Location 3,463,912 – 3,464,009
Length 97
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 64.82
Shannon entropy 0.64632
G+C content 0.41317
Mean single sequence MFE -24.26
Consensus MFE -15.90
Energy contribution -16.02
Covariance contribution 0.12
Combinations/Pair 1.40
Mean z-score -0.70
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.40
SVM RNA-class probability 0.936471
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3463912 97 + 24543557
UUGUUACCAAGCGCAGAUUUGUUGCUCUGCGUUUGGGUUGCUUUGAAGUAAGGAG-UCCUCU---CAUUAAAAAAUAUGCUUAUUU---UUAAUACUACCGUUC-
..((..(((((((((((........)))))))))))...)).....((((..(((-....))---)....(((((((....)))))---))..)))).......- ( -25.20, z-score =  -2.52, R)
>droAna3.scaffold_13337 13317834 105 - 23293914
UUGCCACCAAGCGCCGGUUCGUGGCAGUGCGAUUGGGAUACUUCGAGGUGAGUGGCUGCCCUGUUUGCCUGCUCCUUUGGUGGAUAACCUAGUCUCUUCUGCAUC
.((((((..(((....))).))))))(((((((((((.((((((((((.(((((((..........))).)))))))))).)).)).)))))))......)))). ( -33.50, z-score =   0.09, R)
>droEre2.scaffold_4784 6156059 103 + 25762168
UUGUUACCAAGCGCAGAUUUGUUGCCCUGCGCUUGGGUUCCUUUGAAGUAAGGAG-UGUUUACAAGGAGUGCUUACAAAAUUAUAUGAUUGCUUAUUAUGGUUU-
......((((((((((..........))))))))))..(((((......)))))(-((..(((.....)))..))).((((((((...........))))))))- ( -27.40, z-score =  -1.32, R)
>droYak2.chr3L 4013039 97 + 24197627
UUGUUACCAAGCGCAGAUUUGUGGCCUUGCGUUUGGGUUUCUUUGAGGUAAGGAG-UGCUUAGUCUAAAU---UAUAUGCUUGUUU---UUAAUAUUAUUGUUU-
......((((((((((..........))))))))))......(((((..((.(((-((..((((....))---))..))))).)))---))))...........- ( -17.40, z-score =   0.65, R)
>droSec1.super_2 3456505 99 + 7591821
UUGUUACCAAGCGCCGAUUUGUUGCCCUGCGUUUGGGUUCCUUUGAAGUAAGGAG-UUCUCCUCACAAUAAAAAAUACUCUCAUUU---UUAAUACUACCGUU--
(((((.((((((((.(..........).))))))))...........((.((((.-...)))).)))))))...............---..............-- ( -17.80, z-score =  -0.41, R)
>consensus
UUGUUACCAAGCGCAGAUUUGUUGCCCUGCGUUUGGGUUCCUUUGAAGUAAGGAG_UGCUCAGUACAAUUAAAAAUAUGCUUAUUU___UUAAUACUACCGUUU_
......((((((((((..........))))))))))..(((((......)))))................................................... (-15.90 = -16.02 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,463,912 – 3,464,009
Length 97
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 64.82
Shannon entropy 0.64632
G+C content 0.41317
Mean single sequence MFE -20.34
Consensus MFE -9.48
Energy contribution -11.00
Covariance contribution 1.52
Combinations/Pair 1.13
Mean z-score -1.00
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.60
SVM RNA-class probability 0.758178
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3463912 97 - 24543557
-GAACGGUAGUAUUAA---AAAUAAGCAUAUUUUUUAAUG---AGAGGA-CUCCUUACUUCAAAGCAACCCAAACGCAGAGCAACAAAUCUGCGCUUGGUAACAA
-....(((.(((((((---(((.........)))))))).---.((((.-.......))))...)).)))(((.((((((........)))))).)))....... ( -19.80, z-score =  -1.77, R)
>droAna3.scaffold_13337 13317834 105 + 23293914
GAUGCAGAAGAGACUAGGUUAUCCACCAAAGGAGCAGGCAAACAGGGCAGCCACUCACCUCGAAGUAUCCCAAUCGCACUGCCACGAACCGGCGCUUGGUGGCAA
(((((....(((....(((.....)))....(((..(((..........))).)))..)))...)))))..........((((((.((.......)).)))))). ( -24.90, z-score =   1.29, R)
>droEre2.scaffold_4784 6156059 103 - 25762168
-AAACCAUAAUAAGCAAUCAUAUAAUUUUGUAAGCACUCCUUGUAAACA-CUCCUUACUUCAAAGGAACCCAAGCGCAGGGCAACAAAUCUGCGCUUGGUAACAA
-............((...((........))...))......(((.....-.(((((......)))))..(((((((((((........)))))))))))..))). ( -26.00, z-score =  -3.68, R)
>droYak2.chr3L 4013039 97 - 24197627
-AAACAAUAAUAUUAA---AAACAAGCAUAUA---AUUUAGACUAAGCA-CUCCUUACCUCAAAGAAACCCAAACGCAAGGCCACAAAUCUGCGCUUGGUAACAA
-...............---.............---......(((((((.-...(((......)))..........(((.((.......))))))))))))..... ( -10.70, z-score =  -0.49, R)
>droSec1.super_2 3456505 99 - 7591821
--AACGGUAGUAUUAA---AAAUGAGAGUAUUUUUUAUUGUGAGGAGAA-CUCCUUACUUCAAAGGAACCCAAACGCAGGGCAACAAAUCGGCGCUUGGUAACAA
--......((((..((---(.((....)).)))..))))(((((((...-.)))))))...........((((.(((..(....)......))).))))...... ( -20.30, z-score =  -0.32, R)
>consensus
_AAACAGUAGUAUUAA___AAAUAAGCAUAUAAGCAAUUAUACAGAGCA_CUCCUUACUUCAAAGGAACCCAAACGCAGGGCAACAAAUCUGCGCUUGGUAACAA
...................................................(((((......)))))..((((.((((((........)))))).))))...... ( -9.48 = -11.00 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:00:49 2011