Locus 670

Sequence ID dm3.chr2L
Location 4,641,503 – 4,641,618
Length 115
Max. P 0.607999
window890 window891

overview

Window 0

Location 4,641,503 – 4,641,618
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.16
Shannon entropy 0.30809
G+C content 0.40342
Mean single sequence MFE -28.16
Consensus MFE -17.50
Energy contribution -18.00
Covariance contribution 0.50
Combinations/Pair 1.24
Mean z-score -1.85
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.586363
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4641503 115 + 23011544
-----UAACCCAAUUUUCCCAAAAGUAUCCAAACUCAGGAUACCUUUGUUAUCCUCAAAAUGAAAUUAAUAAAUACCUAUGGUACCCACCGUGGAGCCAAUGGGUAGGAUAUCAAGGAUA
-----...................((((((.......))))))(((((.(((((((.....))..........((((((((((.((......)).))).)))))))))))).)))))... ( -30.20, z-score =  -2.54, R)
>droSec1.super_5 2726615 112 + 5866729
-----UAAGCCAAUAUUCCCAAAAGUAUCCAAGCCCAGGAUACCUUUGUUAUCCCCAAAAUGAAAUUAAUAAAUACCUGUGGUACCCACCGUGGAGCCAAUGGGUAGUA---CAAGGAUA
-----..............((((.((((((.......)))))).))))...........................((((((.((((((...((....)).)))))).))---).)))... ( -27.10, z-score =  -1.73, R)
>droYak2.chr2L 4656262 117 + 22324452
CUACUUAACCCAACAAGCCCAGAACUAUCCAAACCCAGGAUUCCUUUGCUAUCCACAAAAUGAUAUUAAUAGUUAUCUCUGGUACCCACCGUGGGGUCAAUGGGUAUCA---CAAGUAUA
.(((((.(((((....((((...((.........(((((((..(((((.((((........)))).))).))..))).))))........)).))))...)))))....---.))))).. ( -24.53, z-score =  -0.32, R)
>droEre2.scaffold_4929 4722278 117 + 26641161
CCACAUAAACCAACAUUUCCGAAAGUAUCCAAACACAGGAUACCUGUGUUAUCCACAAAAUGAAAUUAACUCAUACCUCUGGUACCCACCGUGGAGCCAAUGGGUAGUU---GAAGAAUA
..........((((.....(....)((((((((((((((...)))))))).(((((...((((.......))))......(((....)))))))).....)))))))))---)....... ( -30.80, z-score =  -2.82, R)
>consensus
_____UAACCCAACAUUCCCAAAAGUAUCCAAACCCAGGAUACCUUUGUUAUCCACAAAAUGAAAUUAAUAAAUACCUCUGGUACCCACCGUGGAGCCAAUGGGUAGUA___CAAGGAUA
...................((((.((((((.......)))))).)))).........................(((((((((..((......))..)).))))))).............. (-17.50 = -18.00 +   0.50)

alignment

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secondary structure

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dotplot

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Window 1

Location 4,641,503 – 4,641,618
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 81.16
Shannon entropy 0.30809
G+C content 0.40342
Mean single sequence MFE -34.35
Consensus MFE -24.40
Energy contribution -26.40
Covariance contribution 2.00
Combinations/Pair 1.10
Mean z-score -1.54
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.24
SVM RNA-class probability 0.607999
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4641503 115 - 23011544
UAUCCUUGAUAUCCUACCCAUUGGCUCCACGGUGGGUACCAUAGGUAUUUAUUAAUUUCAUUUUGAGGAUAACAAAGGUAUCCUGAGUUUGGAUACUUUUGGGAAAAUUGGGUUA-----
..(((....((((((((((((((......))))))))(((...)))...................)))))).(((((((((((.......))))))))))))))...........----- ( -36.30, z-score =  -2.36, R)
>droSec1.super_5 2726615 112 - 5866729
UAUCCUUG---UACUACCCAUUGGCUCCACGGUGGGUACCACAGGUAUUUAUUAAUUUCAUUUUGGGGAUAACAAAGGUAUCCUGGGCUUGGAUACUUUUGGGAAUAUUGGCUUA-----
....((((---(..(((((((((......)))))))))..)))))(((((....((..(......)..))..(((((((((((.......))))))))))).)))))........----- ( -34.70, z-score =  -1.84, R)
>droYak2.chr2L 4656262 117 - 22324452
UAUACUUG---UGAUACCCAUUGACCCCACGGUGGGUACCAGAGAUAACUAUUAAUAUCAUUUUGUGGAUAGCAAAGGAAUCCUGGGUUUGGAUAGUUCUGGGCUUGUUGGGUUAAGUAG
..((((((---...(((((((((......)))))))))((((.(((..((.....((((........))))....))..)))))))(((..((....))..))).........)))))). ( -32.20, z-score =  -0.45, R)
>droEre2.scaffold_4929 4722278 117 - 26641161
UAUUCUUC---AACUACCCAUUGGCUCCACGGUGGGUACCAGAGGUAUGAGUUAAUUUCAUUUUGUGGAUAACACAGGUAUCCUGUGUUUGGAUACUUUCGGAAAUGUUGGUUUAUGUGG
......((---((((((((((((......)))))))))((..((((((........(((((...))))).((((((((...))))))))...))))))..))....)))))......... ( -34.20, z-score =  -1.52, R)
>consensus
UAUCCUUG___UACUACCCAUUGGCUCCACGGUGGGUACCAGAGGUAUUUAUUAAUUUCAUUUUGUGGAUAACAAAGGUAUCCUGGGUUUGGAUACUUUUGGGAAUAUUGGGUUA_____
..............(((((((((......)))))))))(((((((((.........((((..((.((((((.......)))))).))..))))))))))))).................. (-24.40 = -26.40 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:17:04 2011