Locus 11746

Sequence ID dm3.chr3R
Location 23,487,940 – 23,488,052
Length 112
Max. P 0.989925
window16142 window16143

overview

Window 2

Location 23,487,940 – 23,488,052
Length 112
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 78.58
Shannon entropy 0.40114
G+C content 0.49429
Mean single sequence MFE -35.48
Consensus MFE -27.93
Energy contribution -28.10
Covariance contribution 0.17
Combinations/Pair 1.32
Mean z-score -2.16
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.39
SVM RNA-class probability 0.989925
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23487940 112 + 27905053
GCCUUUUUUCCCGUCCAUUCAGUGCGUAUACUUAAUACUGAGUGCGGGUGGUU--GUACGACUCUCUGCGUUUGUGUGUG----UUUCUCGGCAAAAUAUCCUGUAUACGCACUGCUG
...................((((((((((((...((((.((((((((..((((--....))))..)))))))))))).((----(......))).........))))))))))))... ( -32.50, z-score =  -2.44, R)
>droSim1.chr3R 23217775 112 + 27517382
GCCUUUUUGCCCGUCCAUUCAGUGCGUAUACUUAAUACUGAGUGCGGGUGGUG--GCACGACUCUCUGCGUUUGUGUGUG----UUUCUCGGCAAAAUAUCCUGUAUACGCACUGCUG
(((...(..((((..(((((((((..((....)).)))))))))))))..).)--))..........(((...(((((((----(....(((.........))).))))))))))).. ( -34.40, z-score =  -1.64, R)
>droSec1.super_22 131173 112 + 1066717
GCCUUUUUGCCCGUCCAUUCAGUGCGUACACUUAAUACUGAGUGCGGGUGGUG--GCACGACUCUCUGCGUUUGUGUGUG----CUUCUCGGCAAAAUAUCCUGUAUACGCACUGCUG
(((...(..((((..(((((((((...........)))))))))))))..).)--))..........(((..((((((((----(.....((........)).))))))))).))).. ( -35.20, z-score =  -1.44, R)
>droYak2.chr3R 5832903 117 - 28832112
GCCUUUUUGUC-GCCCAUUCAGUGCGUAUACUUAAUACCGAGUGCGGGUGGUGCGGUAUGACUCUCUGCGCUUGUGUGUGUGUGUUUCUCGGCAAAAUAUCCUGUAUACGCACUGCUG
...........-.......((((((((((((...(((((((((((((..(((........)))..))))))))).))))...(((......))).........))))))))))))... ( -39.30, z-score =  -2.32, R)
>droEre2.scaffold_4820 5920687 111 - 10470090
GCCCUUUAGUC-GCCCAUUCAGUGCGUAUACUUAAUAUUGAGUGCGGGUGGUG--GCAUGACGCUCUGCGCUUGUGUGUG----UUUCUCGGCAAAAUAUCCUGUAUACGCACUGCUG
...........-.......((((((((((((...(((((((((((((..((((--......)))))))))))).....((----(......))).)))))...))))))))))))... ( -35.80, z-score =  -1.32, R)
>droGri2.scaffold_15074 5614384 88 - 7742996
GCCCUUUUUGGGGGUGGCU--GUGCGUAUACUUAACGGCGAAUGUGUAU--------ACACAUAUAUGCAUUGGUAUGUG--------------------UCUGUAUACGCACUCCUG
(((((.....)))))((..--((((((((((...(((((.(((((((((--------(....)))))))))).)).))).--------------------...)))))))))).)).. ( -35.70, z-score =  -3.80, R)
>consensus
GCCUUUUUGCCCGUCCAUUCAGUGCGUAUACUUAAUACUGAGUGCGGGUGGUG__GCACGACUCUCUGCGUUUGUGUGUG____UUUCUCGGCAAAAUAUCCUGUAUACGCACUGCUG
...................((((((((((((...((((((((((((((.(((........))).)))))))))).))))...........((........)).))))))))))))... (-27.93 = -28.10 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 23,487,940 – 23,488,052
Length 112
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 78.58
Shannon entropy 0.40114
G+C content 0.49429
Mean single sequence MFE -29.67
Consensus MFE -19.08
Energy contribution -21.25
Covariance contribution 2.17
Combinations/Pair 1.14
Mean z-score -2.10
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.68
SVM RNA-class probability 0.960179
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23487940 112 - 27905053
CAGCAGUGCGUAUACAGGAUAUUUUGCCGAGAAA----CACACACAAACGCAGAGAGUCGUAC--AACCACCCGCACUCAGUAUUAAGUAUACGCACUGAAUGGACGGGAAAAAAGGC
...((((((((((((..((((((((((.......----...........)))))((((((...--.......)).)))).)))))..))))))))))))................... ( -28.87, z-score =  -2.53, R)
>droSim1.chr3R 23217775 112 - 27517382
CAGCAGUGCGUAUACAGGAUAUUUUGCCGAGAAA----CACACACAAACGCAGAGAGUCGUGC--CACCACCCGCACUCAGUAUUAAGUAUACGCACUGAAUGGACGGGCAAAAAGGC
...((((((((((((..(((.((((((.......----...........)))))).)))((((--........))))..........))))))))))))................... ( -31.07, z-score =  -2.06, R)
>droSec1.super_22 131173 112 - 1066717
CAGCAGUGCGUAUACAGGAUAUUUUGCCGAGAAG----CACACACAAACGCAGAGAGUCGUGC--CACCACCCGCACUCAGUAUUAAGUGUACGCACUGAAUGGACGGGCAAAAAGGC
...((((((((((((..(((.((((((.......----...........)))))).)))((((--........))))..........))))))))))))................... ( -31.07, z-score =  -1.09, R)
>droYak2.chr3R 5832903 117 + 28832112
CAGCAGUGCGUAUACAGGAUAUUUUGCCGAGAAACACACACACACAAGCGCAGAGAGUCAUACCGCACCACCCGCACUCGGUAUUAAGUAUACGCACUGAAUGGGC-GACAAAAAGGC
...((((((((((((..(((.(((((((...................).)))))).)))((((((.............))))))...)))))))))))).......-........... ( -31.23, z-score =  -2.24, R)
>droEre2.scaffold_4820 5920687 111 + 10470090
CAGCAGUGCGUAUACAGGAUAUUUUGCCGAGAAA----CACACACAAGCGCAGAGCGUCAUGC--CACCACCCGCACUCAAUAUUAAGUAUACGCACUGAAUGGGC-GACUAAAGGGC
...((((((((((((..((((((.....(((...----.........((((...))))..(((--........))))))))))))..))))))))))))..(((..-..)))...... ( -31.00, z-score =  -1.83, R)
>droGri2.scaffold_15074 5614384 88 + 7742996
CAGGAGUGCGUAUACAGA--------------------CACAUACCAAUGCAUAUAUGUGU--------AUACACAUUCGCCGUUAAGUAUACGCAC--AGCCACCCCCAAAAAGGGC
..((.((((((((((.((--------------------(.(((....))).....(((((.--------...))))).....)))..))))))))))--..))...(((.....))). ( -24.80, z-score =  -2.86, R)
>consensus
CAGCAGUGCGUAUACAGGAUAUUUUGCCGAGAAA____CACACACAAACGCAGAGAGUCGUGC__CACCACCCGCACUCAGUAUUAAGUAUACGCACUGAAUGGACGGGCAAAAAGGC
...((((((((((((..((((((((((......................)))))((((((............)).)))).)))))..))))))))))))................... (-19.08 = -21.25 +   2.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:48:50 2011