Locus 7225

Sequence ID dm3.chr3L
Location 13,147,614 – 13,147,707
Length 93
Max. P 0.989807
window9946 window9947

overview

Window 6

Location 13,147,614 – 13,147,707
Length 93
Sequences 8
Columns 107
Reading direction forward
Mean pairwise identity 76.89
Shannon entropy 0.44689
G+C content 0.47497
Mean single sequence MFE -32.52
Consensus MFE -21.28
Energy contribution -22.75
Covariance contribution 1.47
Combinations/Pair 1.09
Mean z-score -2.26
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.39
SVM RNA-class probability 0.989807
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 13147614 93 + 24543557
UAUUAUUG--UUGGCUGG-----CUGCAA-------GGUUGGUGGUGAGGCAAGUGUAUUUGUUUAUUGGCCUCAUUGCCGGGGUUACAGCGAAUUGCAUUUGCCAC
..((((..--(..(((..-----......-------)))..)..))))((((((((((((((((...(((((((......))))))).)))))).)))))))))).. ( -35.60, z-score =  -2.97, R)
>droAna3.scaffold_13337 10964150 107 - 23293914
UAUUGUUCGUUCGGCUGGGACCUCUCCCAUUCUCUUAGCCCUCGCUAAGGCAAGUGUAUUUGUUUAUUGGCCUCAUUGCCGGGGUUACAGCGAAUUGCAUUUGCCAC
............(..(((((....)))))..)..(((((....)))))((((((((((((((((...(((((((......))))))).)))))).)))))))))).. ( -36.60, z-score =  -2.79, R)
>droEre2.scaffold_4784 13156401 93 + 25762168
UGUUGUUG--UUGGGUGG-----CUGCAA-------GGUUGGUGGUGGGGCAAGUGUAUUUGUUUAUUGGCCUCAUUGCCGGGGUUACAGCGAAUUGCAUUUGCCAC
........--....((((-----((((((-------..((((..(((((((.((((........)))).)))))))..)))).((....))...)))))...))))) ( -31.80, z-score =  -1.62, R)
>droYak2.chr3L 13233074 93 + 24197627
UGUUGUUG--UUGGGUGG-----CUGCAA-------GGUGGGUGGUGAGGCAAGUGUAUUUGUUUAUUGGCCUCAUUGCCGGGGUUACAGCGAAUUGCAUUUGCCAC
........--....((((-----((((((-------..((((..(((((((.((((........)))).)))))))..))(......)..))..)))))...))))) ( -33.80, z-score =  -2.29, R)
>droSec1.super_0 5323559 93 + 21120651
UGUUAUUG--UCGGGUGG-----CUGCAA-------GGUUGGUGGUGAGGCAAGUGUAUUUGUUUAUUGGCCUCAUUGCCGGGGUUACAGCGAAUUGCAUUUGCCAC
........--....((((-----((((((-------..((((..(((((((.((((........)))).)))))))..)))).((....))...)))))...))))) ( -32.70, z-score =  -2.03, R)
>droSim1.chr3L 12541813 93 + 22553184
UAUUAUUG--UCGGGUGG-----CUGCAA-------GGUUGGUGGUGAGGCAAGUGUAUUUGUUUAUUGGCCUCAUUGCCGGGGUUACAGCGAAUUGCAUUUGCCAC
........--....((((-----((((((-------..((((..(((((((.((((........)))).)))))))..)))).((....))...)))))...))))) ( -32.70, z-score =  -2.24, R)
>droMoj3.scaffold_6680 9849600 97 - 24764193
UGUUGGUA-UU--GCCAACGAGUGUGUUAU------UGUUGUGUGGGAGGCAAGUGUAUUUGUUUAUUGGCUUCAUUGCCGCUGCGUCUAC-AAUUGCAUUUGCCAU
........-(.--.(((((((........)------))))).)..)..((((((((((.((((..((((((......))))....))..))-)).)))))))))).. ( -30.50, z-score =  -1.61, R)
>droVir3.scaffold_13049 12528601 88 + 25233164
UGUUGGUU-UUUCGCCAUCGAGUGU--UAU------UGUUA------GGGCAAGUGUAUUUGUUUAUUGGGCUCAUUGCCGCU---UCUAC-AAUUGCAUUUGCCAU
.(.((((.-....)))).)......--...------.....------.((((((((((.((((.....((((.....))).).---...))-)).)))))))))).. ( -26.50, z-score =  -2.56, R)
>consensus
UGUUGUUG__UUGGCUGG_____CUGCAA_______GGUUGGUGGUGAGGCAAGUGUAUUUGUUUAUUGGCCUCAUUGCCGGGGUUACAGCGAAUUGCAUUUGCCAC
................................................((((((((((((((((...(((((((......))))))).)))))).)))))))))).. (-21.28 = -22.75 +   1.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 13,147,614 – 13,147,707
Length 93
Sequences 8
Columns 107
Reading direction reverse
Mean pairwise identity 76.89
Shannon entropy 0.44689
G+C content 0.47497
Mean single sequence MFE -21.65
Consensus MFE -10.70
Energy contribution -10.64
Covariance contribution -0.06
Combinations/Pair 1.10
Mean z-score -1.72
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.30
SVM RNA-class probability 0.635978
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 13147614 93 - 24543557
GUGGCAAAUGCAAUUCGCUGUAACCCCGGCAAUGAGGCCAAUAAACAAAUACACUUGCCUCACCACCAACC-------UUGCAG-----CCAGCCAA--CAAUAAUA
.((((...(((((...((((......))))..((((((..................)))))).........-------))))).-----...)))).--........ ( -22.87, z-score =  -2.09, R)
>droAna3.scaffold_13337 10964150 107 + 23293914
GUGGCAAAUGCAAUUCGCUGUAACCCCGGCAAUGAGGCCAAUAAACAAAUACACUUGCCUUAGCGAGGGCUAAGAGAAUGGGAGAGGUCCCAGCCGAACGAACAAUA
.((((.......((((.((....(((..((..((((((..................))))))))..)))...)).))))((((....)))).))))........... ( -26.57, z-score =  -0.11, R)
>droEre2.scaffold_4784 13156401 93 - 25762168
GUGGCAAAUGCAAUUCGCUGUAACCCCGGCAAUGAGGCCAAUAAACAAAUACACUUGCCCCACCACCAACC-------UUGCAG-----CCACCCAA--CAACAACA
(((((...(((((...((((......))))..((.(((..................))).)).........-------))))))-----))))....--........ ( -19.17, z-score =  -1.23, R)
>droYak2.chr3L 13233074 93 - 24197627
GUGGCAAAUGCAAUUCGCUGUAACCCCGGCAAUGAGGCCAAUAAACAAAUACACUUGCCUCACCACCCACC-------UUGCAG-----CCACCCAA--CAACAACA
(((((...(((((...((((......))))..((((((..................)))))).........-------))))))-----))))....--........ ( -23.97, z-score =  -3.12, R)
>droSec1.super_0 5323559 93 - 21120651
GUGGCAAAUGCAAUUCGCUGUAACCCCGGCAAUGAGGCCAAUAAACAAAUACACUUGCCUCACCACCAACC-------UUGCAG-----CCACCCGA--CAAUAACA
(((((...(((((...((((......))))..((((((..................)))))).........-------))))))-----))))....--........ ( -23.97, z-score =  -2.99, R)
>droSim1.chr3L 12541813 93 - 22553184
GUGGCAAAUGCAAUUCGCUGUAACCCCGGCAAUGAGGCCAAUAAACAAAUACACUUGCCUCACCACCAACC-------UUGCAG-----CCACCCGA--CAAUAAUA
(((((...(((((...((((......))))..((((((..................)))))).........-------))))))-----))))....--........ ( -23.97, z-score =  -3.03, R)
>droMoj3.scaffold_6680 9849600 97 + 24764193
AUGGCAAAUGCAAUU-GUAGACGCAGCGGCAAUGAAGCCAAUAAACAAAUACACUUGCCUCCCACACAACA------AUAACACACUCGUUGGC--AA-UACCAACA
..(((((.((...((-((....)))).(((......)))............)).)))))............------...........(((((.--..-..))))). ( -18.60, z-score =  -0.88, R)
>droVir3.scaffold_13049 12528601 88 - 25233164
AUGGCAAAUGCAAUU-GUAGA---AGCGGCAAUGAGCCCAAUAAACAAAUACACUUGCCC------UAACA------AUA--ACACUCGAUGGCGAAA-AACCAACA
..(((((.((...((-((...---...(((.....)))......))))...)).))))).------.....------...--......(.(((.....-..))).). ( -14.10, z-score =  -0.32, R)
>consensus
GUGGCAAAUGCAAUUCGCUGUAACCCCGGCAAUGAGGCCAAUAAACAAAUACACUUGCCUCACCACCAACC_______UUGCAG_____CCACCCAA__CAACAACA
..(((((..((.....)).........(((......)))...............)))))................................................ (-10.70 = -10.64 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:22:52 2011