Locus 4851

Sequence ID dm3.chr2R
Location 15,956,830 – 15,956,898
Length 68
Max. P 0.829128
window6664 window6665

overview

Window 4

Location 15,956,830 – 15,956,898
Length 68
Sequences 3
Columns 72
Reading direction forward
Mean pairwise identity 62.62
Shannon entropy 0.52746
G+C content 0.48585
Mean single sequence MFE -16.97
Consensus MFE -8.95
Energy contribution -8.73
Covariance contribution -0.22
Combinations/Pair 1.33
Mean z-score -1.40
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.83
SVM RNA-class probability 0.829128
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15956830 68 + 21146708
GGUU--CUCGGCACUCGCUGCCGCAUACCUCACCUUGAUAUGACAACCAACAUGCUG--UGGUUCUCCAAAU
(((.--..(((((.....)))))...)))............((.(((((........--))))).))..... ( -15.20, z-score =  -1.24, R)
>droYak2.chr2R 20933168 70 - 21139217
GAUC--UGCGGUUCUCGUAGCCGCAUAGUUCACCUAGUAACAAUGAACAGCAUUCCAAAUGGUUUAGCGAAU
....--(((((((.....)))))))..(((((...........))))).(((..((....))..).)).... ( -15.00, z-score =  -0.99, R)
>droEre2.scaffold_4845 20419854 66 - 22589142
GGUUGAUGCGGCUCUCGUAGCCGCAUAGCUCACCUAGUAAGUAUGAAGAACAUUCCGGAUGUUCUC------
(((..((((((((.....)))))))).....)))............((((((((...)))))))).------ ( -20.70, z-score =  -1.97, R)
>consensus
GGUU__UGCGGCUCUCGUAGCCGCAUAGCUCACCUAGUAACAAUGAACAACAUUCCG_AUGGUUUA_C_AAU
((....(((((((.....)))))))....))......................................... ( -8.95 =  -8.73 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,956,830 – 15,956,898
Length 68
Sequences 3
Columns 72
Reading direction reverse
Mean pairwise identity 62.62
Shannon entropy 0.52746
G+C content 0.48585
Mean single sequence MFE -17.60
Consensus MFE -9.39
Energy contribution -8.40
Covariance contribution -0.99
Combinations/Pair 1.43
Mean z-score -1.16
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.653036
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15956830 68 - 21146708
AUUUGGAGAACCA--CAGCAUGUUGGUUGUCAUAUCAAGGUGAGGUAUGCGGCAGCGAGUGCCGAG--AACC
.....((.(((((--........))))).))............(((...(((((.....)))))..--.))) ( -17.50, z-score =  -0.46, R)
>droYak2.chr2R 20933168 70 + 21139217
AUUCGCUAAACCAUUUGGAAUGCUGUUCAUUGUUACUAGGUGAACUAUGCGGCUACGAGAACCGCA--GAUC
....((....((....))...)).(((((((.......)))))))..(((((.........)))))--.... ( -14.50, z-score =  -0.39, R)
>droEre2.scaffold_4845 20419854 66 + 22589142
------GAGAACAUCCGGAAUGUUCUUCAUACUUACUAGGUGAGCUAUGCGGCUACGAGAGCCGCAUCAACC
------((((((((.....))))))))...........(((.....((((((((.....))))))))..))) ( -20.80, z-score =  -2.64, R)
>consensus
AUU_G_AAAACCAU_CGGAAUGUUGUUCAUAAUUACUAGGUGAGCUAUGCGGCUACGAGAGCCGCA__AACC
...............((((......)))).........(((......(((((((.....)))))))...))) ( -9.39 =  -8.40 +  -0.99)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:37:12 2011