Locus 9855

Sequence ID dm3.chr3R
Location 9,424,576 – 9,424,681
Length 105
Max. P 0.585410
window13532 window13533

overview

Window 2

Location 9,424,576 – 9,424,681
Length 105
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 74.51
Shannon entropy 0.49419
G+C content 0.34016
Mean single sequence MFE -22.12
Consensus MFE -8.79
Energy contribution -10.02
Covariance contribution 1.23
Combinations/Pair 1.37
Mean z-score -1.85
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.17
SVM RNA-class probability 0.578576
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 9424576 105 + 27905053
UUUUUAAUUUAAUUUGUAUGCC--GUUCGCAACUCCUUAAUCAUAGUGGUUAAAAGUUAAGAAACCCAUUCGCCCAUGCUUUUAAUGGGAUGUAAUGGCAUUGCGAU
.............(((((((((--(((.((((((..((((((.....)))))).))))......((((((.((....))....))))))..))))))))).))))). ( -24.70, z-score =  -1.74, R)
>droMoj3.scaffold_6496 15911701 100 + 26866924
UUUUUAGCUCAACUCAUUUUCUCAAUUUAUAUAAACAAAGUCAAGUGAGUUAGAAUAUAAUAAACGCUUU--UUAACACUCUUCAUUUAUUACUAUUCGGCU-----
.....((((.(((((((((.((...(((....)))...))..))))))))).((((((((((((......--.............))))))).)))))))))----- ( -12.81, z-score =  -1.91, R)
>droEre2.scaffold_4770 5534080 105 - 17746568
UUCUUAAUUUAAUUUGUGUGCC--UUUCCCAAUUCCUUAAUCAAAGCCGUUAAAAGCUGAGAAAGACAUUACCCCAUUCCCUUAAUGGGGUGUAGUGGCAUUGCAAU
.............(((((((((--................((..(((........)))..))...((..(((((((((.....)))))))))..)))))).))))). ( -23.90, z-score =  -1.73, R)
>droYak2.chr3R 13733364 105 + 28832112
UUUUUAAUUUAAUUUGUAUGCC--UUUCCCAACUCCUUAAUCAUAGUGGUUAAAAGUUAAGAAACCCAUUCGCCCAUUCCCUUAAUGGGGUGUAAUAGCAUUGCAAU
.............((((((((.--((((..((((..((((((.....)))))).))))..))))........((((((.....))))))........))).))))). ( -19.20, z-score =  -1.06, R)
>droSec1.super_0 8538167 105 - 21120651
UUUUUAAUUUAAUUUGUAUGCC--GUUCGCAACUCCUUAAUCAUAGUGGUUAAAAGUUAAGAAACCCAUUCGCCCACGCUUUUAAUGGGGUGUAAUGGCAUUGCAAU
.............(((((((((--((((((((((..((((((.....)))))).))))......((((((.((....))....))))))))).))))))).))))). ( -28.10, z-score =  -2.61, R)
>droSim1.chr3R 15502636 105 - 27517382
UUUUUAAUUUAAUUUGUAUGCC--GUUCGCAACUCCUUAAUCAUAGUGGUUAAAAGUUAAGAAACCCAUUCGCCCAUGCUUUUAAUGGAGUUUAAUGGCAUUGCGAU
.............(((((((((--(((...((((((.....(.....)(((((((((...(((.....)))......))))))))))))))).))))))).))))). ( -24.00, z-score =  -2.04, R)
>consensus
UUUUUAAUUUAAUUUGUAUGCC__GUUCGCAACUCCUUAAUCAUAGUGGUUAAAAGUUAAGAAACCCAUUCGCCCAUGCUCUUAAUGGGGUGUAAUGGCAUUGCAAU
.............(((((((((...(((..((((..((((((.....)))))).))))..))).........(((((.......))))).......)))).))))). ( -8.79 = -10.02 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 9,424,576 – 9,424,681
Length 105
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 74.51
Shannon entropy 0.49419
G+C content 0.34016
Mean single sequence MFE -22.37
Consensus MFE -10.63
Energy contribution -10.64
Covariance contribution 0.01
Combinations/Pair 1.52
Mean z-score -1.47
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.585410
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 9424576 105 - 27905053
AUCGCAAUGCCAUUACAUCCCAUUAAAAGCAUGGGCGAAUGGGUUUCUUAACUUUUAACCACUAUGAUUAAGGAGUUGCGAAC--GGCAUACAAAUUAAAUUAAAAA
.(((((((.(((((....(((((.......)))))..)))))..((((((((.............).))))))))))))))..--...................... ( -21.52, z-score =  -1.22, R)
>droMoj3.scaffold_6496 15911701 100 - 26866924
-----AGCCGAAUAGUAAUAAAUGAAGAGUGUUAA--AAAGCGUUUAUUAUAUUCUAACUCACUUGACUUUGUUUAUAUAAAUUGAGAAAAUGAGUUGAGCUAAAAA
-----(((.(((((.(((((((((.....(....)--....))))))))))))))(((((((((..(.(((((....))))))..))....))))))).)))..... ( -18.90, z-score =  -2.10, R)
>droEre2.scaffold_4770 5534080 105 + 17746568
AUUGCAAUGCCACUACACCCCAUUAAGGGAAUGGGGUAAUGUCUUUCUCAGCUUUUAACGGCUUUGAUUAAGGAAUUGGGAAA--GGCACACAAAUUAAAUUAAGAA
................((((((((.....))))))))..((((((((((((((......))))..((((....))))))))))--)))).................. ( -26.00, z-score =  -1.48, R)
>droYak2.chr3R 13733364 105 - 28832112
AUUGCAAUGCUAUUACACCCCAUUAAGGGAAUGGGCGAAUGGGUUUCUUAACUUUUAACCACUAUGAUUAAGGAGUUGGGAAA--GGCAUACAAAUUAAAUUAAAAA
..(((....(((((....((((((.....))))))..))))).(((((((((((((((.(.....).)))).)))))))))))--.))).................. ( -22.40, z-score =  -1.04, R)
>droSec1.super_0 8538167 105 + 21120651
AUUGCAAUGCCAUUACACCCCAUUAAAAGCGUGGGCGAAUGGGUUUCUUAACUUUUAACCACUAUGAUUAAGGAGUUGCGAAC--GGCAUACAAAUUAAAUUAAAAA
.(((..(((((.......((((((....((....)).)))))).(((.((((((((((.(.....).)))).)))))).))).--))))).)))............. ( -22.10, z-score =  -0.87, R)
>droSim1.chr3R 15502636 105 + 27517382
AUCGCAAUGCCAUUAAACUCCAUUAAAAGCAUGGGCGAAUGGGUUUCUUAACUUUUAACCACUAUGAUUAAGGAGUUGCGAAC--GGCAUACAAAUUAAAUUAAAAA
......(((((.((.((((((.((((...(((((......(((((....))))).......))))).))))))))))...)).--)))))................. ( -23.32, z-score =  -2.11, R)
>consensus
AUUGCAAUGCCAUUACACCCCAUUAAAAGCAUGGGCGAAUGGGUUUCUUAACUUUUAACCACUAUGAUUAAGGAGUUGCGAAC__GGCAUACAAAUUAAAUUAAAAA
......(((((.......(((((.......))))).........(((.((((((((..............)))))))).)))...)))))................. (-10.63 = -10.64 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:12:34 2011