Locus 14362

Sequence ID dm3.chrX
Location 12,890,450 – 12,890,567
Length 117
Max. P 0.713058
window19771 window19772

overview

Window 1

Location 12,890,450 – 12,890,567
Length 117
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 75.32
Shannon entropy 0.44851
G+C content 0.38666
Mean single sequence MFE -29.72
Consensus MFE -14.93
Energy contribution -18.16
Covariance contribution 3.23
Combinations/Pair 1.18
Mean z-score -1.70
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.663004
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12890450 117 + 22422827
CUUCUGGCACCUUAUCUUUGCAUUUUUAAUUAAAUUAAAGUUGCAAACUUAAGGAGUGGAAG--GUGCACAGGAUGCUCCAAGUUUGCAAUGCGUUACCUUGGUGAACGAAACUAAGGG
......((((((((..((((((.(((((((...))))))).))))))..))))).(..((.(--(.(((.....))).))...))..)..)))....(((((((.......))))))). ( -35.20, z-score =  -2.56, R)
>droSim1.chrX 9819945 118 + 17042790
UUUCUAACACCUUAUCUUUGCAUUUUUAAUUAAAUUAAAGCUGCAAAGUUAAGGAGUGGGAAU-GUGCAAAGGGUGUUCAAAGUUUGCAAUGCGUUACCUUGGUGAACGAAACUAAGGG
.((((.((.(((((.(((((((.(((((((...))))))).))))))).))))).)).)))).-.((((((............))))))........(((((((.......))))))). ( -34.00, z-score =  -2.93, R)
>droSec1.super_21 632651 118 + 1102487
UUUCUAACACCUUAUCUUUGCAUUUUUAAUUAAAUUUAAGCUGCAAAGUUACGGAGUGGGAAU-GUGCAAAGGGUGUUCAAAGUUUGCAAUGCGUUACCUUGGUGAACGAAACUAAGGG
.((((.((.((.((.(((((((..(((((......))))).))))))).)).)).)).)))).-.((((((............))))))........(((((((.......))))))). ( -27.80, z-score =  -0.85, R)
>droYak2.chrX 7161091 118 + 21770863
UUUCUAACACCUUAUCUUUGCAUUUCUAAUUAAAUGAAAGUUACAAAGUUAAAGAGUGUGGGCAGUGCAAAGG-UGUACAAAGUUUGCACUGCGUUGCCUUGGUGAGUGAAGUGAAGGG
.........((((..(((..(.((((.........)))).........(((..(((.(..(((((((((((..-(.....)..)))))))))).)..))))..))))..)))..)))). ( -32.40, z-score =  -1.59, R)
>droEre2.scaffold_4690 4776056 89 - 18748788
UUUCUAACACCU-AUCUUGGCAUUUCUAAUUUAAUUAAAGUGGCAAAGUUACAGAGUGGGAA--GUGCACAGGUGG--CGAGUGAAACAAAGGG-------------------------
((((...(.((.-..((((((((((((......(((...(((((...)))))..))).))))--)))).)))).))--.)...)))).......------------------------- ( -19.20, z-score =  -0.58, R)
>consensus
UUUCUAACACCUUAUCUUUGCAUUUUUAAUUAAAUUAAAGUUGCAAAGUUAAGGAGUGGGAA__GUGCAAAGGGUGUUCAAAGUUUGCAAUGCGUUACCUUGGUGAACGAAACUAAGGG
((((((.(.(((((.(((((((.(((((((...))))))).))))))).))))).)))))))...((((((............))))))........(((((((.......))))))). (-14.93 = -18.16 +   3.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 12,890,450 – 12,890,567
Length 117
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 75.32
Shannon entropy 0.44851
G+C content 0.38666
Mean single sequence MFE -22.49
Consensus MFE -11.84
Energy contribution -13.20
Covariance contribution 1.36
Combinations/Pair 1.19
Mean z-score -1.63
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.48
SVM RNA-class probability 0.713058
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12890450 117 - 22422827
CCCUUAGUUUCGUUCACCAAGGUAACGCAUUGCAAACUUGGAGCAUCCUGUGCAC--CUUCCACUCCUUAAGUUUGCAACUUUAAUUUAAUUAAAAAUGCAAAGAUAAGGUGCCAGAAG
......((((((((.((....)))))((...))......)))))...(((.((((--(((..(((.....)))(((((..((((((...))))))..)))))....))))))))))... ( -25.10, z-score =  -1.23, R)
>droSim1.chrX 9819945 118 - 17042790
CCCUUAGUUUCGUUCACCAAGGUAACGCAUUGCAAACUUUGAACACCCUUUGCAC-AUUCCCACUCCUUAACUUUGCAGCUUUAAUUUAAUUAAAAAUGCAAAGAUAAGGUGUUAGAAA
..........((((.((....))))))...((((((............)))))).-.(((..((.(((((.(((((((..((((((...))))))..))))))).))))).))..))). ( -26.10, z-score =  -2.86, R)
>droSec1.super_21 632651 118 - 1102487
CCCUUAGUUUCGUUCACCAAGGUAACGCAUUGCAAACUUUGAACACCCUUUGCAC-AUUCCCACUCCGUAACUUUGCAGCUUAAAUUUAAUUAAAAAUGCAAAGAUAAGGUGUUAGAAA
.......((((...((((..((........((((((............)))))).-.........))....(((((((..((((......))))...)))))))....))))...)))) ( -21.07, z-score =  -0.94, R)
>droYak2.chrX 7161091 118 - 21770863
CCCUUCACUUCACUCACCAAGGCAACGCAGUGCAAACUUUGUACA-CCUUUGCACUGCCCACACUCUUUAACUUUGUAACUUUCAUUUAAUUAGAAAUGCAAAGAUAAGGUGUUAGAAA
........(((...((((..(....)((((((((((.........-..)))))))))).............(((((((..((((.........)))))))))))....))))...))). ( -28.60, z-score =  -3.33, R)
>droEre2.scaffold_4690 4776056 89 + 18748788
-------------------------CCCUUUGUUUCACUCG--CCACCUGUGCAC--UUCCCACUCUGUAACUUUGCCACUUUAAUUAAAUUAGAAAUGCCAAGAU-AGGUGUUAGAAA
-------------------------.............((.--.((((((((((.--.........)))..(((.((...((((((...))))))...)).)))))-)))))...)).. ( -11.60, z-score =   0.23, R)
>consensus
CCCUUAGUUUCGUUCACCAAGGUAACGCAUUGCAAACUUUGAACACCCUUUGCAC__UUCCCACUCCUUAACUUUGCAACUUUAAUUUAAUUAAAAAUGCAAAGAUAAGGUGUUAGAAA
..............................((((((............))))))........((.(((((.(((((((..((((((...))))))..))))))).))))).))...... (-11.84 = -13.20 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:38:45 2011