Locus 5515

Sequence ID dm3.chr2R
Location 21,014,097 – 21,014,220
Length 123
Max. P 0.997551
window7569 window7570 window7571

overview

Window 9

Location 21,014,097 – 21,014,189
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 72.22
Shannon entropy 0.43425
G+C content 0.44506
Mean single sequence MFE -23.14
Consensus MFE -11.48
Energy contribution -14.42
Covariance contribution 2.94
Combinations/Pair 1.17
Mean z-score -1.74
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.30
SVM RNA-class probability 0.634924
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 21014097 92 + 21146708
AUCGGGGUUGCGUGUGAUGUGAUGUUUGCCUGUAUGUUGAUCCAGUAGUUAGAAACGGCUAUGACUGCUCCAAUGUUAAGCAGUCAUAGCCG
....((((((((.(..(........)..).))).....)))))............((((((((((((((.........)))))))))))))) ( -30.70, z-score =  -2.56, R)
>droSim1.chr2R 19466552 82 + 19596830
AUCGGGUUAGCGUGUGA----------GUGUGUAGGUUGAUCAAGUAGUUAUAAACGGCUAUUACUGCUCCAAUUCUAAGCAGUCAUAGCCG
....(((((((.((...----------.....)).))))))).............(((((((.((((((.........)))))).))))))) ( -24.90, z-score =  -2.52, R)
>droSec1.super_23 870947 82 + 989336
AUCGGGUUAGCGUGUGA----------GAGUGUAGGUUGAUCAAGUAGUUAUAAACGGCUAUUACUGCUCCAAUGUUAAGCAGUCAUAGCCG
....(((((((.((...----------.....)).))))))).............(((((((.((((((.........)))))).))))))) ( -24.90, z-score =  -2.53, R)
>droYak2.chr2R 20984771 69 + 21139217
AUCGGGUUAGCUUGUGA----------GUGUGAAGGUUGGUUUGGUGGUUAUAAAC-----------UUUCAGU--UAAACGGCCAUGACUG
....((((((((.((..----------...((((((((...............)))-----------)))))..--...)))))..))))). ( -12.06, z-score =   0.64, R)
>consensus
AUCGGGUUAGCGUGUGA__________GUGUGUAGGUUGAUCAAGUAGUUAUAAACGGCUAUUACUGCUCCAAUGUUAAGCAGUCAUAGCCG
....((((((((((..................)))))))))).............(((((((.((((((.........)))))).))))))) (-11.48 = -14.42 +   2.94)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,014,097 – 21,014,189
Length 92
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 72.22
Shannon entropy 0.43425
G+C content 0.44506
Mean single sequence MFE -18.40
Consensus MFE -12.21
Energy contribution -14.15
Covariance contribution 1.94
Combinations/Pair 1.14
Mean z-score -2.81
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.13
SVM RNA-class probability 0.997551
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 21014097 92 - 21146708
CGGCUAUGACUGCUUAACAUUGGAGCAGUCAUAGCCGUUUCUAACUACUGGAUCAACAUACAGGCAAACAUCACAUCACACGCAACCCCGAU
(((((((((((((((.......)))))))))))))))..........(((..........)))............................. ( -28.50, z-score =  -4.93, R)
>droSim1.chr2R 19466552 82 - 19596830
CGGCUAUGACUGCUUAGAAUUGGAGCAGUAAUAGCCGUUUAUAACUACUUGAUCAACCUACACAC----------UCACACGCUAACCCGAU
(((((((.(((((((.......))))))).)))))))............................----------................. ( -20.40, z-score =  -3.37, R)
>droSec1.super_23 870947 82 - 989336
CGGCUAUGACUGCUUAACAUUGGAGCAGUAAUAGCCGUUUAUAACUACUUGAUCAACCUACACUC----------UCACACGCUAACCCGAU
(((((((.(((((((.......))))))).)))))))............................----------................. ( -20.40, z-score =  -3.66, R)
>droYak2.chr2R 20984771 69 - 21139217
CAGUCAUGGCCGUUUA--ACUGAAA-----------GUUUAUAACCACCAAACCAACCUUCACAC----------UCACAAGCUAACCCGAU
......(((..(((.(--((.....-----------)))...)))..)))...............----------................. (  -4.30, z-score =   0.71, R)
>consensus
CGGCUAUGACUGCUUAACAUUGGAGCAGUAAUAGCCGUUUAUAACUACUUGAUCAACCUACACAC__________UCACACGCUAACCCGAU
(((((((.(((((((.......))))))).)))))))....................................................... (-12.21 = -14.15 +   1.94)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,014,128 – 21,014,220
Length 92
Sequences 8
Columns 99
Reading direction forward
Mean pairwise identity 51.32
Shannon entropy 0.92620
G+C content 0.40962
Mean single sequence MFE -26.30
Consensus MFE 0.00
Energy contribution 0.00
Covariance contribution 0.00
Combinations/Pair 0.00
Mean z-score -2.94
Structure conservation index -0.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.746315
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 21014128 92 + 21146708
-----GUAUGUUGAUCCAGUAGUUAGAAACGGCUAUGACUGCUCCAAUGUUAAGCAGUCAUAGCCGUUUAUAGCCGGCUGUUGCAAUAAA-ACAGUUU-
-----...(((((...((((.((((.(((((((((((((((((.........))))))))))))))))).))))..))))...)))))..-.......- ( -39.90, z-score =  -7.14, R)
>droSim1.chr2R 19466573 92 + 19596830
-----GUAGGUUGAUCAAGUAGUUAUAAACGGCUAUUACUGCUCCAAUUCUAAGCAGUCAUAGCCGUUUAUAGCCGGCUGUUACAAUAAU-ACAGUUU-
-----(((.((((....(((.(((((((((((((((.((((((.........)))))).)))))))))))))))..)))....))))..)-)).....- ( -35.10, z-score =  -6.35, R)
>droSec1.super_23 870968 92 + 989336
-----GUAGGUUGAUCAAGUAGUUAUAAACGGCUAUUACUGCUCCAAUGUUAAGCAGUCAUAGCCGUUUAUAGCCGGCUGUUACAAUAAU-ACAGUUU-
-----(((.((((....(((.(((((((((((((((.((((((.........)))))).)))))))))))))))..)))....))))..)-)).....- ( -35.10, z-score =  -5.95, R)
>droYak2.chr2R 20984792 86 + 21139217
-----GAAGGUUGGUUUGGUGGUUAUAAAC-----UUUCAGUUAAACGGCCAUGACUGCUUAGCUAUUGGU-GUUGGCUAUUACAAUAAA-UCAGCUU-
-----..((((((((((((((((((...((-----(...((((((.(((......))).))))))...)))-..))))))).....))))-)))))))- ( -22.10, z-score =  -1.44, R)
>droEre2.scaffold_4845 22432301 91 + 22589142
GGUGUGUUGGUCGAUCAGGUAGUUAUAAAC-----UUUCAGUUAAGCGGCCAUGACUGCUUAGCGAUUGGU-GUUGGCCAUUACAAUAAA-UCAGCUU-
..((((.((((((((..((.(((.....))-----).)).(((((((((......))))))))).......-)))))))).)))).....-.......- ( -25.40, z-score =  -1.39, R)
>droWil1.scaffold_180700 5286491 80 - 6630534
---------GUGGGAUGACUGACUCAAGGU-----UGUGGCUUAUAAAUUUGCCAAGAGAUUGC-----CUUUCGGUCAAUUAUAUUAAAGCCAGCUGA
---------......(((((((...(((((-----..((((..........)))).......))-----)))))))))).................... ( -17.60, z-score =  -0.02, R)
>droMoj3.scaffold_6496 22981177 69 + 26866924
------------------GUGAG-CAGCAU-----GUGGGGUUAUAAAUUCAGUGCGAAAUUGCA----CUGGUCGCCCAUUACAGUAAC-UCAGCUG-
------------------.((((-..((.(-----(((((((.......((((((((....))))----))))..))))..))))))..)-)))....- ( -21.00, z-score =  -1.47, R)
>droGri2.scaffold_15112 781693 70 - 5172618
--------------AUGCCUGGUUAUAAAU--------UAGCUGGAAAAUUGCCUUGGCUUAGAC-----CAGUUGGCCAUUAUACUAAA-UCAGCUG-
--------------..((.(((((((((.(--------(((((((......((....)).....)-----)))))))...)))))....)-)))))..- ( -14.20, z-score =   0.27, R)
>consensus
_____GUAGGUUGAUCAAGUAGUUAUAAAC_____UUACAGCUACAAAGUUAAGAAGGCAUAGCC_UU_AUAGCCGGCUAUUACAAUAAA_UCAGCUU_
................................................................................................... (  0.00 =   0.00 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:49:54 2011