Locus 13075

Sequence ID dm3.chrX
Location 4,192,999 – 4,193,068
Length 69
Max. P 0.980612
window17967 window17968

overview

Window 7

Location 4,192,999 – 4,193,068
Length 69
Sequences 6
Columns 77
Reading direction forward
Mean pairwise identity 60.14
Shannon entropy 0.77107
G+C content 0.44735
Mean single sequence MFE -17.85
Consensus MFE -7.49
Energy contribution -7.22
Covariance contribution -0.28
Combinations/Pair 1.14
Mean z-score -1.52
Structure conservation index 0.42
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.05
SVM RNA-class probability 0.980612
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4192999 69 + 22422827
CGUGGAUACCCUGGAAUUUGAUCG--CAAAACUAAGGGUAUG-CGGAUGAAAGUACAGCCAAGUAUAAGCAA-----
.(((.(((((((....((((....--))))....))))))).-)((.((......)).))........))..----- ( -15.40, z-score =  -1.05, R)
>droSim1.chrX 3229485 76 + 17042790
CGUGGAUACCCUGGAAUUUGAGCGGA-UAAGGUAAGGGUAUGCAUGAUGAAAGUACAGCAAAGUAUAAGCUUUUGAA
((((.(((((((....((((......-))))...))))))).))))..((((((((......))....))))))... ( -17.10, z-score =  -1.68, R)
>droSec1.super_4 3634718 77 - 6179234
CGUGGAUACCCUGGAAUUUGAUCGGAUAAGGGUAAGGGUAUGCAUGAUGAAAGUACAGCAAAGUAUAUGCUUUGGAA
((((.(((((((....((((......))))....))))))).))))............((((((....))))))... ( -20.60, z-score =  -2.74, R)
>droYak2.chrX 17523395 73 - 21770863
CCAGGAUACCCUGGAACUGGAUAG---AAACCUUAGGGUAUG-ACCAUUGAAGUUCACAACAUGAGCGGCUUAGGUA
(((((....)))))..........---..((((.((((....-.))......(((((.....)))))..)).)))). ( -18.40, z-score =  -0.72, R)
>droEre2.scaffold_4690 1564633 62 + 18748788
CGUGGAUACCCUGGAAUG--------------CUAGGGUAUG-CCGUUUAAAGUGCACAAUACCAGCAGCUUUGGUA
...(((((((((((....--------------))))))))).-))..(((((((((.........))).)))))).. ( -20.40, z-score =  -1.57, R)
>droAna3.scaffold_13117 394756 63 - 5790199
CGGCGAUAUCCUGGACAAAUCCUGC-----CAAAAGGAUAUGCAC----GGACUCCAGCAAAGGAUAAUCAA-----
....(((((((((..((.(((((..-----....))))).))..)----((...)).....))))).)))..----- ( -15.20, z-score =  -1.35, R)
>consensus
CGUGGAUACCCUGGAAUUUGAUCG___AAACCUAAGGGUAUG_ACGAUGAAAGUACAGCAAAGUAUAAGCUUUGG_A
.....(((((((......................))))))).................................... ( -7.49 =  -7.22 +  -0.28)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,192,999 – 4,193,068
Length 69
Sequences 6
Columns 77
Reading direction reverse
Mean pairwise identity 60.14
Shannon entropy 0.77107
G+C content 0.44735
Mean single sequence MFE -12.81
Consensus MFE -5.96
Energy contribution -5.68
Covariance contribution -0.28
Combinations/Pair 1.14
Mean z-score -0.91
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.930224
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 4192999 69 - 22422827
-----UUGCUUAUACUUGGCUGUACUUUCAUCCG-CAUACCCUUAGUUUUG--CGAUCAAAUUCCAGGGUAUCCACG
-----............((.((......)).))(-.(((((((....((((--....))))....))))))).)... ( -12.10, z-score =  -0.94, R)
>droSim1.chrX 3229485 76 - 17042790
UUCAAAAGCUUAUACUUUGCUGUACUUUCAUCAUGCAUACCCUUACCUUA-UCCGCUCAAAUUCCAGGGUAUCCACG
......(((.........)))............((.(((((((.......-..............))))))).)).. (  -9.00, z-score =  -1.22, R)
>droSec1.super_4 3634718 77 + 6179234
UUCCAAAGCAUAUACUUUGCUGUACUUUCAUCAUGCAUACCCUUACCCUUAUCCGAUCAAAUUCCAGGGUAUCCACG
......((((.......))))............((.(((((((......................))))))).)).. ( -10.65, z-score =  -1.93, R)
>droYak2.chrX 17523395 73 + 21770863
UACCUAAGCCGCUCAUGUUGUGAACUUCAAUGGU-CAUACCCUAAGGUUU---CUAUCCAGUUCCAGGGUAUCCUGG
(((((..((.((....)).))(((((...((((.-...(((....)))..---))))..)))))..)))))...... ( -13.20, z-score =   0.53, R)
>droEre2.scaffold_4690 1564633 62 - 18748788
UACCAAAGCUGCUGGUAUUGUGCACUUUAAACGG-CAUACCCUAG--------------CAUUCCAGGGUAUCCACG
....((((.(((.........)))))))....((-.(((((((..--------------......)))))))))... ( -15.80, z-score =  -1.13, R)
>droAna3.scaffold_13117 394756 63 + 5790199
-----UUGAUUAUCCUUUGCUGGAGUCC----GUGCAUAUCCUUUUG-----GCAGGAUUUGUCCAGGAUAUCGCCG
-----..(((.(((((..((..((((((----.(((.((......))-----)))))))))))..)))))))).... ( -16.10, z-score =  -0.79, R)
>consensus
U_CCAAAGCUUAUACUUUGCUGUACUUUCAUCGU_CAUACCCUUACCUUU___CGAUCAAAUUCCAGGGUAUCCACG
....................................(((((((......................)))))))..... ( -5.96 =  -5.68 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:14:06 2011