Locus 4365

Sequence ID dm3.chr2R
Location 12,547,193 – 12,547,290
Length 97
Max. P 0.956140
window5985 window5986

overview

Window 5

Location 12,547,193 – 12,547,290
Length 97
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 65.49
Shannon entropy 0.63900
G+C content 0.42842
Mean single sequence MFE -22.82
Consensus MFE -7.79
Energy contribution -7.60
Covariance contribution -0.19
Combinations/Pair 1.43
Mean z-score -2.26
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.63
SVM RNA-class probability 0.956140
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12547193 97 + 21146708
GGGCUACACUGGGCUUCAUA-CUAUCUUAAAGAUAAUCU-----CUACCCUAACCAUCCCCAACAAAUGAAAAUGGGACCAGACACAUGUCUGU--AGCUAGACU
.((((((...(((.......-.((((.....))))....-----...)))........((((...........))))...((((....))))))--))))..... ( -20.16, z-score =  -0.98, R)
>droSim1.chr2R 11280612 96 + 19596830
--GGGCUACUGGGCUUCAUA-CUAUCAUUAAGAUAAUCG-----CUACCCUAACCAUACCCAACAAACGAAAAUGGGAC-AGACACAUGUCUGUGUAGCUAGACU
--.((((((.(((.......-.((((.....))))....-----...)))........((((...........))))((-((((....))))))))))))..... ( -24.06, z-score =  -2.27, R)
>droSec1.super_1 10045111 96 + 14215200
--AUGCUACUGGGCUUCAUA-CUAUCAUUAAGAUAAUCU-----CUACCCUAACCAUACCCAACAAACGAAAAUGGGAC-AGACACAUGUCUGUGUAGCUAGACU
--..(((((.(((.......-.((((.....))))....-----...)))........((((...........))))((-((((....)))))))))))...... ( -22.56, z-score =  -2.57, R)
>droYak2.chr2R 4705109 100 - 21139217
--GGUCUACUGGCCUUUCCAACUAUGUCUAACAUUUUCUUUUUUCUACCCUAACCAUCCCCAACAAACGAAAAUGGGAC-AGACACAUGUCUGU--AGCUAGACU
--((((....))))...........(((((.(..........................((((...........))))((-((((....))))))--.).))))). ( -21.90, z-score =  -2.56, R)
>droEre2.scaffold_4845 9276227 75 - 22589142
--GGGCUACUGGGCUUCAUA-------CCAA------------------CUAGCUAUGCCCAACAAACGAAAAUGGGGC-AGACACAUGUCUGU--AGCUAGACU
--(((((....)))))....-------....------------------((((((((((((..............))))-((((....))))))--))))))... ( -23.44, z-score =  -2.33, R)
>droAna3.scaffold_13266 5839443 92 - 19884421
--AAUGGGCUGUACUUGAUG----UUUAAAAGACAAAUU------UGAGCUAUAUAACCCAAAAAAGGAGGAACUACGU-AUGCAUUUGUAGUCCCCUCCAGAGU
--..((((.((((((..(((----((.....))))...)------..))...)))).)))).....(((((.((((((.-.......))))))..)))))..... ( -24.80, z-score =  -2.85, R)
>consensus
__GGGCUACUGGGCUUCAUA_CUAUCUUUAAGAUAAUCU_____CUACCCUAACCAUCCCCAACAAACGAAAAUGGGAC_AGACACAUGUCUGU__AGCUAGACU
........((((..............................................((((...........))))((.((((....))))))....))))... ( -7.79 =  -7.60 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 12,547,193 – 12,547,290
Length 97
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 65.49
Shannon entropy 0.63900
G+C content 0.42842
Mean single sequence MFE -26.85
Consensus MFE -9.45
Energy contribution -8.82
Covariance contribution -0.63
Combinations/Pair 1.57
Mean z-score -2.12
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.47
SVM RNA-class probability 0.941678
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12547193 97 - 21146708
AGUCUAGCU--ACAGACAUGUGUCUGGUCCCAUUUUCAUUUGUUGGGGAUGGUUAGGGUAG-----AGAUUAUCUUUAAGAUAG-UAUGAAGCCCAGUGUAGCCC
......(((--((((((....))))....(((((..((.....))..)))))...((((..-----..((((((.....)))))-).....))))...))))).. ( -30.60, z-score =  -2.30, R)
>droSim1.chr2R 11280612 96 - 19596830
AGUCUAGCUACACAGACAUGUGUCU-GUCCCAUUUUCGUUUGUUGGGUAUGGUUAGGGUAG-----CGAUUAUCUUAAUGAUAG-UAUGAAGCCCAGUAGCCC--
......(((((((((((....))))-)).((((.((((.....)))).))))...((((..-----((((((((.....)))))-).))..)))).)))))..-- ( -31.00, z-score =  -2.93, R)
>droSec1.super_1 10045111 96 - 14215200
AGUCUAGCUACACAGACAUGUGUCU-GUCCCAUUUUCGUUUGUUGGGUAUGGUUAGGGUAG-----AGAUUAUCUUAAUGAUAG-UAUGAAGCCCAGUAGCAU--
......(((((((((((....))))-)).((((.((((.....)))).))))...((((..-----..((((((.....)))))-).....)))).)))))..-- ( -30.50, z-score =  -2.92, R)
>droYak2.chr2R 4705109 100 + 21139217
AGUCUAGCU--ACAGACAUGUGUCU-GUCCCAUUUUCGUUUGUUGGGGAUGGUUAGGGUAGAAAAAAGAAAAUGUUAGACAUAGUUGGAAAGGCCAGUAGACC--
.(((((((.--((((((....))))-)).(((((..((.....))..))))).....................)))))))....((((.....))))......-- ( -27.70, z-score =  -2.07, R)
>droEre2.scaffold_4845 9276227 75 + 22589142
AGUCUAGCU--ACAGACAUGUGUCU-GCCCCAUUUUCGUUUGUUGGGCAUAGCUAG------------------UUGG-------UAUGAAGCCCAGUAGCCC--
...((((((--(.((((....))))-((((.((........)).)))).)))))))------------------((((-------........))))......-- ( -21.00, z-score =  -1.18, R)
>droAna3.scaffold_13266 5839443 92 + 19884421
ACUCUGGAGGGGACUACAAAUGCAU-ACGUAGUUCCUCCUUUUUUGGGUUAUAUAGCUCA------AAUUUGUCUUUUAAA----CAUCAAGUACAGCCCAUU--
.....((((((.(((((........-..)))))))))))...((((((((....))))))------)).(((((((.....----....))).))))......-- ( -20.30, z-score =  -1.31, R)
>consensus
AGUCUAGCU__ACAGACAUGUGUCU_GUCCCAUUUUCGUUUGUUGGGGAUGGUUAGGGUAG_____AGAUUAUCUUAAAGAUAG_UAUGAAGCCCAGUAGACC__
...((((((....((((....))))...((((...........))))...))))))................................................. ( -9.45 =  -8.82 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:27:49 2011