Locus 4858

Sequence ID dm3.chr2R
Location 16,045,778 – 16,045,874
Length 96
Max. P 0.868713
window6675 window6676

overview

Window 5

Location 16,045,778 – 16,045,874
Length 96
Sequences 7
Columns 97
Reading direction forward
Mean pairwise identity 74.83
Shannon entropy 0.52730
G+C content 0.40777
Mean single sequence MFE -23.03
Consensus MFE -10.33
Energy contribution -10.53
Covariance contribution 0.19
Combinations/Pair 1.43
Mean z-score -1.84
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.99
SVM RNA-class probability 0.868713
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16045778 96 + 21146708
AUAAGCGGGAAGCAGGAAACAUUAGAAAUCUAAUGAUU-CCAUUCCAUUCCACGCUCCUUUCGUUCGAACAGCGACGCCAGGAAGAUAUUAUGAUUA
....(((((((...((((.((((((....)))))).))-))......)))).)))((((..(((.((.....)))))..)))).............. ( -26.90, z-score =  -3.03, R)
>droSim1.chr2R 14698631 96 + 19596830
AUAAGCGGGAAGCAGGAAACAUUAGAAAUCUAAUGAUU-CCAUUCCAUUCCACGCUCCUUUCAUUCGAACAGCGACGCCAGGAAGAUAUUAUGAUUA
....(((((((...((((.((((((....)))))).))-)).))))......((((...(((....))).)))).)))................... ( -24.10, z-score =  -2.48, R)
>droSec1.super_1 13607247 96 + 14215200
AUAAGCGGGAAGCAGGAAACAUUAGAAAUCUAAUGAUU-CCAUUCCAUUCCACGCUCCUUUCAUUCGAACAGCGACGCCAGGAAGAUAUUAUGAUUA
....(((((((...((((.((((((....)))))).))-)).))))......((((...(((....))).)))).)))................... ( -24.10, z-score =  -2.48, R)
>droYak2.chr2R 7979073 96 - 21139217
AUAAGCGGGAAGCAGGAAACAUUAGAAAUCUAAUGAUU-CCAUUCCACUCCACGCUCCUUUCAUUCGAAUGGCGACGCCAGGAAGAUAUUAUGAUUA
....(((((((...((((.((((((....)))))).))-)).))))......((((...(((....))).)))).)))................... ( -24.80, z-score =  -2.01, R)
>droEre2.scaffold_4845 10195608 96 + 22589142
AUAAGCGGGAAGCAGGAAACAUUAGGAAUCUAAUGAUU-CCAUUCCACUCCACGCUCCCUUCCCUCAAACAGCGACGCCAGGAAGAUAUUAUGAUUA
...(((((((....(....)....((((((....))))-)).......))).))))..(((((.................)))))............ ( -22.93, z-score =  -1.59, R)
>droAna3.scaffold_13266 10590474 88 - 19884421
AUAAGCGGGAAGCAGGAAACAUUAGAAAUCUAAUGAUU-C-GCCCCAGCUGCCAUUCCU-------GAAAAGUAUCGCCAGGAAGAUAUUGUGAUUA
...((((((..((..(((.((((((....)))))).))-)-))))).)))....(((((-------(...........))))))............. ( -21.50, z-score =  -1.35, R)
>droGri2.scaffold_15112 2487718 97 - 5172618
AUAAUCGGCCAACAAUAUAUUCAACUAUUCUUGGGCUUAUUAUUUCAUGAUAUUUAAGGAGCAAUUGGAUUGUUGAUUAGAGAGAACCGAAUGCGGA
....((((.........((.(((((.((((....((((..((((....))))......))))....)))).))))).)).......))))....... ( -16.89, z-score =   0.06, R)
>consensus
AUAAGCGGGAAGCAGGAAACAUUAGAAAUCUAAUGAUU_CCAUUCCAUUCCACGCUCCUUUCAUUCGAACAGCGACGCCAGGAAGAUAUUAUGAUUA
....(((((((...((.((((((((....)))))).)).)).))))......((((..............)))).)))................... (-10.33 = -10.53 +   0.19)

alignment

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secondary structure

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dotplot

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Window 6

Location 16,045,778 – 16,045,874
Length 96
Sequences 7
Columns 97
Reading direction reverse
Mean pairwise identity 74.83
Shannon entropy 0.52730
G+C content 0.40777
Mean single sequence MFE -24.87
Consensus MFE -11.36
Energy contribution -11.86
Covariance contribution 0.50
Combinations/Pair 1.53
Mean z-score -1.59
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.58
SVM RNA-class probability 0.751573
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16045778 96 - 21146708
UAAUCAUAAUAUCUUCCUGGCGUCGCUGUUCGAACGAAAGGAGCGUGGAAUGGAAUGG-AAUCAUUAGAUUUCUAAUGUUUCCUGCUUCCCGCUUAU
..............((((..(((((.....)).)))..))))(((.(((..((...((-((.((((((....)))))).))))..)))))))).... ( -28.90, z-score =  -2.64, R)
>droSim1.chr2R 14698631 96 - 19596830
UAAUCAUAAUAUCUUCCUGGCGUCGCUGUUCGAAUGAAAGGAGCGUGGAAUGGAAUGG-AAUCAUUAGAUUUCUAAUGUUUCCUGCUUCCCGCUUAU
..............((((..(((((.....)).)))..))))(((.(((..((...((-((.((((((....)))))).))))..)))))))).... ( -27.10, z-score =  -2.12, R)
>droSec1.super_1 13607247 96 - 14215200
UAAUCAUAAUAUCUUCCUGGCGUCGCUGUUCGAAUGAAAGGAGCGUGGAAUGGAAUGG-AAUCAUUAGAUUUCUAAUGUUUCCUGCUUCCCGCUUAU
..............((((..(((((.....)).)))..))))(((.(((..((...((-((.((((((....)))))).))))..)))))))).... ( -27.10, z-score =  -2.12, R)
>droYak2.chr2R 7979073 96 + 21139217
UAAUCAUAAUAUCUUCCUGGCGUCGCCAUUCGAAUGAAAGGAGCGUGGAGUGGAAUGG-AAUCAUUAGAUUUCUAAUGUUUCCUGCUUCCCGCUUAU
..............((((..(((((.....)).)))..))))(((.(((..((...((-((.((((((....)))))).))))..)))))))).... ( -27.10, z-score =  -1.78, R)
>droEre2.scaffold_4845 10195608 96 - 22589142
UAAUCAUAAUAUCUUCCUGGCGUCGCUGUUUGAGGGAAGGGAGCGUGGAGUGGAAUGG-AAUCAUUAGAUUCCUAAUGUUUCCUGCUUCCCGCUUAU
...........(((((((..((........)).)))))))(((((.(((((((((.((-((((....))))))......)))).))))).))))).. ( -31.50, z-score =  -2.06, R)
>droAna3.scaffold_13266 10590474 88 + 19884421
UAAUCACAAUAUCUUCCUGGCGAUACUUUUC-------AGGAAUGGCAGCUGGGGC-G-AAUCAUUAGAUUUCUAAUGUUUCCUGCUUCCCGCUUAU
.............(((((((.........))-------)))))....(((.(((((-(-((.((((((....)))))).)))..)).))).)))... ( -21.30, z-score =  -1.05, R)
>droGri2.scaffold_15112 2487718 97 + 5172618
UCCGCAUUCGGUUCUCUCUAAUCAACAAUCCAAUUGCUCCUUAAAUAUCAUGAAAUAAUAAGCCCAAGAAUAGUUGAAUAUAUUGUUGGCCGAUUAU
...(((...((..................))...))).................(((((..(((.((.((((........)))).)))))..))))) ( -11.07, z-score =   0.62, R)
>consensus
UAAUCAUAAUAUCUUCCUGGCGUCGCUGUUCGAAUGAAAGGAGCGUGGAAUGGAAUGG_AAUCAUUAGAUUUCUAAUGUUUCCUGCUUCCCGCUUAU
........................................(((((.((((.((((.......((((((....)))))).))))...))))))))).. (-11.36 = -11.86 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:37:21 2011