Locus 1862

Sequence ID dm3.chr2L
Location 14,438,982 – 14,439,075
Length 93
Max. P 0.805003
window2564 window2565

overview

Window 4

Location 14,438,982 – 14,439,075
Length 93
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 84.86
Shannon entropy 0.29277
G+C content 0.48312
Mean single sequence MFE -27.22
Consensus MFE -22.51
Energy contribution -22.07
Covariance contribution -0.44
Combinations/Pair 1.19
Mean z-score -1.43
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.805003
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14438982 93 + 23011544
AAUGGAGAUUCCUCCCUAUCGACAAUGUUGUUAUCUGUUCAGCUGUCGUCGUUGUUGUAGUUGC----UGCGGCUUGUUUUACAAGCUGGAUGGGCU-
...((((....))))((((((((((((.((.((.((....)).)).)).)))))))........----..(((((((.....))))))))))))...- ( -26.20, z-score =  -1.37, R)
>droSim1.chr2L 14187726 93 + 22036055
AAUGGAGAUUCCUCCCUAUCGACAAUGUUGUUAUCUGUUCAGCUGUCGUCGUUGUUGUAGUUGC----UGCGGCUUGUUUUACAAGCUGGAUGGGCU-
...((((....))))((((((((((((.((.((.((....)).)).)).)))))))........----..(((((((.....))))))))))))...- ( -26.20, z-score =  -1.37, R)
>droSec1.super_3 698161 93 + 7220098
AAUGGAGAUUCCUCCCUAUCGACAAUGUUGUUAUCUGUUCAGCUGUCGUCGUUGUUGUAGUUGC----UGCGGCUUGUUUUACAAGCUGGAUGGGCU-
...((((....))))((((((((((((.((.((.((....)).)).)).)))))))........----..(((((((.....))))))))))))...- ( -26.20, z-score =  -1.37, R)
>droYak2.chr2L 14543786 93 + 22324452
GUUGGGGAUUCCUCCCUAUCGACAAUGUUGUUAUCUGUUCAGCUGUCGUCGUUGUUGUAGUUGC----UGCGGCUUGUUUUACAAGCUGGAUGGGCU-
(.((((((....)))))).)((((....)))).(((((((((((((.......(((((((...)----)))))).......)).)))))))))))..- ( -27.74, z-score =  -1.53, R)
>droAna3.scaffold_12916 14799672 93 - 16180835
UGUGGCAGCUCCUCCCCUUCGACAAUGUUGCUAUCUGUUCAGCUGUCGUCGUGGCUGUAGUUGC----UGUGGCUUGUUUUACAAGUAGGAUGGGCU-
.(..((((((.(..(((..(((((.((..((.....)).))..)))))..).))..).))))))----..)((((..(((((....)))))..))))- ( -30.60, z-score =  -1.31, R)
>droPer1.super_5 1763520 86 + 6813705
------------AUCCCAUCGACAAUGUUGUUAUCUGUUCAGCUGUCGUCGUCGUUGCCGUCGUGCUGUGUGGCUUGUUUUACAAGUCGGAUGGGGCU
------------.(((((((((((....)))).......((((((.((.((....)).)).)).))))..(((((((.....)))))))))))))).. ( -26.40, z-score =  -1.64, R)
>consensus
AAUGGAGAUUCCUCCCUAUCGACAAUGUUGUUAUCUGUUCAGCUGUCGUCGUUGUUGUAGUUGC____UGCGGCUUGUUUUACAAGCUGGAUGGGCU_
..............((((((((((..((((.........)))))))).......................(((((((.....)))))))))))))... (-22.51 = -22.07 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,438,982 – 14,439,075
Length 93
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 84.86
Shannon entropy 0.29277
G+C content 0.48312
Mean single sequence MFE -19.74
Consensus MFE -13.77
Energy contribution -14.30
Covariance contribution 0.53
Combinations/Pair 1.06
Mean z-score -1.63
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.21
SVM RNA-class probability 0.592803
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14438982 93 - 23011544
-AGCCCAUCCAGCUUGUAAAACAAGCCGCA----GCAACUACAACAACGACGACAGCUGAACAGAUAACAACAUUGUCGAUAGGGAGGAAUCUCCAUU
-..((((((..(((((.....)))))..((----((...................))))....(((((.....)))))))).))).((.....))... ( -18.61, z-score =  -1.41, R)
>droSim1.chr2L 14187726 93 - 22036055
-AGCCCAUCCAGCUUGUAAAACAAGCCGCA----GCAACUACAACAACGACGACAGCUGAACAGAUAACAACAUUGUCGAUAGGGAGGAAUCUCCAUU
-..((((((..(((((.....)))))..((----((...................))))....(((((.....)))))))).))).((.....))... ( -18.61, z-score =  -1.41, R)
>droSec1.super_3 698161 93 - 7220098
-AGCCCAUCCAGCUUGUAAAACAAGCCGCA----GCAACUACAACAACGACGACAGCUGAACAGAUAACAACAUUGUCGAUAGGGAGGAAUCUCCAUU
-..((((((..(((((.....)))))..((----((...................))))....(((((.....)))))))).))).((.....))... ( -18.61, z-score =  -1.41, R)
>droYak2.chr2L 14543786 93 - 22324452
-AGCCCAUCCAGCUUGUAAAACAAGCCGCA----GCAACUACAACAACGACGACAGCUGAACAGAUAACAACAUUGUCGAUAGGGAGGAAUCCCCAAC
-..((((((..(((((.....)))))..((----((...................))))....(((((.....)))))))).))).((.....))... ( -18.01, z-score =  -1.48, R)
>droAna3.scaffold_12916 14799672 93 + 16180835
-AGCCCAUCCUACUUGUAAAACAAGCCACA----GCAACUACAGCCACGACGACAGCUGAACAGAUAGCAACAUUGUCGAAGGGGAGGAGCUGCCACA
-(((((.(((..((((.....))))((...----((.......))..((((((..((((......))))....))))))..))))))).)))...... ( -22.00, z-score =  -0.96, R)
>droPer1.super_5 1763520 86 - 6813705
AGCCCCAUCCGACUUGUAAAACAAGCCACACAGCACGACGGCAACGACGACGACAGCUGAACAGAUAACAACAUUGUCGAUGGGAU------------
...((((((.(.((((.....)))).)...((((.((.((....)).))......))))....(((((.....)))))))))))..------------ ( -22.60, z-score =  -3.12, R)
>consensus
_AGCCCAUCCAGCUUGUAAAACAAGCCGCA____GCAACUACAACAACGACGACAGCUGAACAGAUAACAACAUUGUCGAUAGGGAGGAAUCUCCAUU
....((.(((.(((((.....)))))........................((((((.((............))))))))...))).)).......... (-13.77 = -14.30 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:40:17 2011