Locus 4322

Sequence ID dm3.chr2R
Location 12,221,178 – 12,221,273
Length 95
Max. P 0.999193
window5927 window5928

overview

Window 7

Location 12,221,178 – 12,221,273
Length 95
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 78.50
Shannon entropy 0.38227
G+C content 0.49774
Mean single sequence MFE -30.83
Consensus MFE -19.09
Energy contribution -19.49
Covariance contribution 0.39
Combinations/Pair 1.23
Mean z-score -2.23
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.62
SVM RNA-class probability 0.955636
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12221178 95 + 21146708
AACCAUCACAACCCCAAACUCUGGCGCCAGACAGUCCAGCGCCAGUUUGUCUAUGUUGCGAUGGUAUAUAUGUA----------------CAUGUGUACACUGUACAGGCC
.((((((.((((.....((.(((((((..(.....)..)))))))...))....)))).)))))).....((((----------------((.((....)))))))).... ( -33.20, z-score =  -3.06, R)
>droSim1.chr2R 10951955 95 + 19596830
AACCAUCACAACCCCAAACUCUGGCGCCAGACAGUCCAGCGCCAGUUUGUCUAUGUUUCGAUGGUGUAUAUGUA----------------CAUGUGUACACUGUACAGGCC
.(((((((((....((((((..(((((..(.....)..)))))))))))....)))...))))))(((((((((----------------(....))))).)))))..... ( -30.90, z-score =  -2.52, R)
>droSec1.super_1 9718935 95 + 14215200
AACCAUCACAACCCCAAACUCUGGCGCCAGACAGUCCAGCGCCAGUUUGUCUAUGUUUCGAUGGUGUAUAUGUA----------------CAUGUGUACACUGUACAGGCC
.(((((((((....((((((..(((((..(.....)..)))))))))))....)))...))))))(((((((((----------------(....))))).)))))..... ( -30.90, z-score =  -2.52, R)
>droYak2.chr2R 4374179 95 - 21139217
AACCAUCGCAACCCCAAACUCUGGCGCCAGACAGUCCAGCGCCAGUUUGUCUAUGUUUCGAUGGUAUAUAUGCA----------------CAUGUGUACACUGUACAGGCC
.(((((((.(((.....((.(((((((..(.....)..)))))))...))....))).))))))).........----------------..(.(((((...))))).).. ( -28.20, z-score =  -1.80, R)
>droEre2.scaffold_4845 8948184 111 - 22589142
AACCAUCACAACCCCAAACUCUGGCGCCAGGCAGUCCAGCGCCAGUUUGUCUAUGUUUCUAUGGUAUAUACAUAUGUAUGUAUGUGCAUACAUGUGUACACUGUACAGGCC
..............((((((..(((((..((....)).))))))))))).....((((.((((((...(((((((((((((....))))))))))))).)))))).)))). ( -35.00, z-score =  -1.81, R)
>droAna3.scaffold_13266 15597900 80 + 19884421
---------AGCCUCGAACUCUGGCGCCAGACAGUCCAGCGCCAGUGUGUCUAUGCUCCUAUUAUACGUAUUUUGGGA------------UAGGCGAGUCC----------
---------...(((..((.(((((((..(.....)..))))))).))(((((...(((((..((....))..)))))------------))))))))...---------- ( -26.80, z-score =  -1.66, R)
>consensus
AACCAUCACAACCCCAAACUCUGGCGCCAGACAGUCCAGCGCCAGUUUGUCUAUGUUUCGAUGGUAUAUAUGUA________________CAUGUGUACACUGUACAGGCC
...((((..(((.....((.(((((((..(.....)..)))))))...))....)))..))))(((((((((..................)))))))))............ (-19.09 = -19.49 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,221,178 – 12,221,273
Length 95
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 78.50
Shannon entropy 0.38227
G+C content 0.49774
Mean single sequence MFE -38.85
Consensus MFE -28.55
Energy contribution -29.67
Covariance contribution 1.11
Combinations/Pair 1.09
Mean z-score -3.50
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.70
SVM RNA-class probability 0.999193
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12221178 95 - 21146708
GGCCUGUACAGUGUACACAUG----------------UACAUAUAUACCAUCGCAACAUAGACAAACUGGCGCUGGACUGUCUGGCGCCAGAGUUUGGGGUUGUGAUGGUU
....((((((((....)).))----------------)))).....(((((((((((.(((((...(((((((..(.....)..))))))).)))))..))))))))))). ( -44.80, z-score =  -5.03, R)
>droSim1.chr2R 10951955 95 - 19596830
GGCCUGUACAGUGUACACAUG----------------UACAUAUACACCAUCGAAACAUAGACAAACUGGCGCUGGACUGUCUGGCGCCAGAGUUUGGGGUUGUGAUGGUU
.....(((..((((((....)----------------))))).)))(((((((.(((.(((((...(((((((..(.....)..))))))).)))))..))).))))))). ( -39.40, z-score =  -3.67, R)
>droSec1.super_1 9718935 95 - 14215200
GGCCUGUACAGUGUACACAUG----------------UACAUAUACACCAUCGAAACAUAGACAAACUGGCGCUGGACUGUCUGGCGCCAGAGUUUGGGGUUGUGAUGGUU
.....(((..((((((....)----------------))))).)))(((((((.(((.(((((...(((((((..(.....)..))))))).)))))..))).))))))). ( -39.40, z-score =  -3.67, R)
>droYak2.chr2R 4374179 95 + 21139217
GGCCUGUACAGUGUACACAUG----------------UGCAUAUAUACCAUCGAAACAUAGACAAACUGGCGCUGGACUGUCUGGCGCCAGAGUUUGGGGUUGCGAUGGUU
....((((((((....)).))----------------)))).....(((((((.(((.(((((...(((((((..(.....)..))))))).)))))..))).))))))). ( -40.10, z-score =  -3.82, R)
>droEre2.scaffold_4845 8948184 111 + 22589142
GGCCUGUACAGUGUACACAUGUAUGCACAUACAUACAUAUGUAUAUACCAUAGAAACAUAGACAAACUGGCGCUGGACUGCCUGGCGCCAGAGUUUGGGGUUGUGAUGGUU
..........(((((((.(((((((......))))))).)))))))(((((...(((.(((((...(((((((..(.....)..))))))).)))))..)))...))))). ( -42.20, z-score =  -2.90, R)
>droAna3.scaffold_13266 15597900 80 - 19884421
----------GGACUCGCCUA------------UCCCAAAAUACGUAUAAUAGGAGCAUAGACACACUGGCGCUGGACUGUCUGGCGCCAGAGUUCGAGGCU---------
----------......((((.------------(((................))).....((.((.(((((((..(.....)..))))))).)))).)))).--------- ( -27.19, z-score =  -1.92, R)
>consensus
GGCCUGUACAGUGUACACAUG________________UACAUAUAUACCAUCGAAACAUAGACAAACUGGCGCUGGACUGUCUGGCGCCAGAGUUUGGGGUUGUGAUGGUU
..............................................(((((((.(((.(((((...(((((((..(.....)..))))))).)))))..))).))))))). (-28.55 = -29.67 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:27:00 2011