Locus 10480

Sequence ID dm3.chr3R
Location 14,025,463 – 14,025,648
Length 185
Max. P 0.650680
window14417 window14418

overview

Window 7

Location 14,025,463 – 14,025,583
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.93
Shannon entropy 0.26416
G+C content 0.41887
Mean single sequence MFE -35.64
Consensus MFE -23.56
Energy contribution -24.44
Covariance contribution 0.88
Combinations/Pair 1.10
Mean z-score -1.98
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.650680
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14025463 120 + 27905053
AAAUGAGCUAAAUUCUAUUAAGGUUUAAUUAUAUUAUCGAUUAAUUAUGACAGGGCUGCCAGCGUGCUGGAAAAAGCUCAUUUGGCGUUGCCACGGUCGCCUAAGGGUGUCUGGCAGCGU
(((((((((............(((((..((((((((.....))).)))))..))))).((((....))))....))))))))).(((((((((.((.((((....))))))))))))))) ( -40.70, z-score =  -2.77, R)
>droSim1.chr3R 20061709 118 - 27517382
AAAUAAGCAAAAUUCUAUUAAGGUUUUU--AGAAAAUCGAUUAAUUAUGACAGAGCUGCCAGCCUGCUGAAAAAAGCUCAUUUGGCGUUGCCACGGUCGCCUAAAGGUGUCUGGCAGCGU
.......((((.(((((..........)--))))..................(((((..(((....))).....))))).))))(((((((((.((.((((....))))))))))))))) ( -33.50, z-score =  -1.52, R)
>droSec1.super_12 1996672 118 - 2123299
AAAUAAGCUAAAUACUAUUAAGGUUUUA--AGAAAAUCGAUUAAUUAUGACAGGGCUGCCAGCCUGCUGAAAAAAGCUCAUUUGGCGUUGCCACGAUCGCCUAAGGGUGUCUGGCAGCGU
......(((((((........(((((..--...)))))..............(((((..(((....))).....))))))))))))(((((((.((.((((....))))))))))))).. ( -35.70, z-score =  -1.92, R)
>droYak2.chr3R 2627274 118 + 28832112
AUAAAAGCUGAUUUCUAUUAAAUAUUUU--AGAAAAUCGAUUAGUUAAUGCAAGGCUGCCAUCCUGCUUAAAAAAGCUCGCUUUGCGUUGCCAGGCUCGCCCAAGGUUGUCUGGCAGCGU
.....((((((((((((..........)--))).....))))))))...(((((((.........((((....))))..)))))))((((((((((..(((...))).)))))))))).. ( -36.10, z-score =  -2.23, R)
>droEre2.scaffold_4770 10136429 118 - 17746568
AUAAAAGCAAAAUUCUAUUAUGUUUUUU--AGAAAAUCGAUUAAUUACGACAAGGCUGCCAGCUUGCUCAAAAAAGCUCAUUUGGCGUUGCCAGGCUCGUCCAAGGUUGUCUGGCAGCGU
.....(((....(((((..(....)..)--))))..(((........)))....)))(((((...(((......)))....)))))((((((((((....(....)..)))))))))).. ( -32.20, z-score =  -1.47, R)
>consensus
AAAUAAGCUAAAUUCUAUUAAGGUUUUU__AGAAAAUCGAUUAAUUAUGACAGGGCUGCCAGCCUGCUGAAAAAAGCUCAUUUGGCGUUGCCACGCUCGCCUAAGGGUGUCUGGCAGCGU
.....((((.......(((((....(((.....)))....)))))........))))(((((...(((......)))....)))))(((((((....((((....))))..))))))).. (-23.56 = -24.44 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,025,543 – 14,025,648
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.06
Shannon entropy 0.39618
G+C content 0.46219
Mean single sequence MFE -32.64
Consensus MFE -18.20
Energy contribution -18.68
Covariance contribution 0.48
Combinations/Pair 1.16
Mean z-score -1.63
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.18
SVM RNA-class probability 0.579189
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14025543 105 + 27905053
UUUGGCGUUGCCACGGUCGCCUAAGGGUGUCUGGCAGCGUAGUU-------------GGCAAUUCACCAAGGAGGACCGUACAGAAGUUCGCGGAUAAAAUAUA--UCUUAAAUGCUAAA
.((((((((...((((((.(((...((((..((.((((...)))-------------).))...)))).)))..))))))............(((((.....))--)))..)))))))). ( -33.30, z-score =  -1.73, R)
>droSim1.chr3R 20061787 102 - 27517382
UUUGGCGUUGCCACGGUCGCCUAAAGGUGUCUGGCAGCGUAGUU-------------GGCAAUUUACCAAGGAG---UGCACAGGAGUUCGCGGAUAAAUUAUA--UAUUUAAUGUUAAA
....(((((((((.((.((((....)))))))))))))))..((-------------((((............(---((.((....)).)))...(((((....--.))))).)))))). ( -27.60, z-score =  -0.68, R)
>droSec1.super_12 1996750 102 - 2123299
UUUGGCGUUGCCACGAUCGCCUAAGGGUGUCUGGCAGCGUAGUU-------------GGCAAUUCACCAAGGAG---CGCACAGAAGUUCGCGAAUAAAAUAUA--UCUUUCGUGUUAAA
....(((((((((.((.((((....)))))))))))))))..((-------------(((...........(((---(........))))(((((.........--...)))))))))). ( -31.40, z-score =  -1.57, R)
>droYak2.chr3R 2627352 116 + 28832112
CUUUGCGUUGCCAGGCUCGCCCAAGGUUGUCUGGCAGCGUUGCCCAUGUU-UCGUA-GUCAAUUCGCCAAGGAAG--UGCAUAGAAGUUCGCUGAUAAAGUAAAUUUCUUCAAUAUUACU
....((((((((((((..(((...))).))))))))))))..........-..(((-((......(((......)--.))..(((((((..((.....))..))))))).....))))). ( -33.10, z-score =  -1.86, R)
>droEre2.scaffold_4770 10136507 118 - 17746568
UUUGGCGUUGCCAGGCUCGUCCAAGGUUGUCUGGCAGCGUAGCCAUUGGUAUCGUAUGGCAAUUCGCCAAGGAAG--UGCGUAGAAGUUCGCGGAUAAAAUAUACUUCUUCAAUAAUUCA
((((((((((((((((....(....)..))))))))))...(((((((....)).))))).....))))))(((.--.....((((((...............)))))).......))). ( -37.78, z-score =  -2.31, R)
>consensus
UUUGGCGUUGCCACGCUCGCCUAAGGGUGUCUGGCAGCGUAGUU_____________GGCAAUUCACCAAGGAGG__UGCACAGAAGUUCGCGGAUAAAAUAUA__UCUUCAAUGUUAAA
....(((((((((....((((....))))..)))))))))..................(((.(((......)))...)))........................................ (-18.20 = -18.68 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:24:49 2011