Locus 7247

Sequence ID 3L_DroMel_CAF1
Location 19,406,051 – 19,406,163
Length 112
Max. P 0.952589
window11781 window11782

overview

Window 1

Location 19,406,051 – 19,406,163
Length 112
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 76.76
Mean single sequence MFE -20.41
Consensus MFE -13.07
Energy contribution -12.82
Covariance contribution -0.25
Combinations/Pair 1.20
Mean z-score -1.58
Structure conservation index 0.64
SVM decision value -0.05
SVM RNA-class probability 0.509452
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19406051 112 + 23771897
UUUGCUCUGCACACAAU---AAAAACUACUUUCUGUGGAAUUAUCUAAUUCCCAGGCAUAAGCAGAAUAUGAGUUUAUAUGUAAAUGCGGCUGCAUAUCCAAGCCGCUCAUAUCC
((((((.(((.......---(((......)))(((.((((((....))))))))))))..))))))(((((((((((....)))))((((((.........)))))))))))).. ( -28.20)
>DroSec_CAF1 44967 92 + 1
UUUGCUCUACACACAAU---AAAAACUACUUUCUGUGGAAUUAUCUAAU-CCCAGGCAUAAGCUGAAUACGAGUUUAUAUGUAAAUGCGGUCGCAU-------------------
.((((..((((......---...........((((.(((.........)-)))))).(((((((.......))))))).))))...))))......------------------- ( -13.40)
>DroSim_CAF1 45129 93 + 1
UUUGCUCUACAUACAAU---AAAAACUACUUUCUGUGGAAUUAUCUAAUUCCCAGGCAUAAGCUGAAUACGAGUUUAUAUGUAAAUGCGGCUGCAU-------------------
..(((.(..((((((..---...........((((.((((((....)))))))))).(((((((.......))))))).))))..))..)..))).------------------- ( -18.50)
>DroYak_CAF1 71029 96 + 1
AUCACAUUACAUAAAAUGUUUAAAUCCACUUUCUUUAGAUUUAUCUAAUUCUGAGGUAUAAGAGGAAUGUGAGUUUAUAUGUAAAUGUGGCUGCAU-------------------
.((((((((((((((((.......(((.(((.(((((((..........)))))))...))).)))......)))).))))).)))))))......------------------- ( -21.52)
>consensus
UUUGCUCUACACACAAU___AAAAACUACUUUCUGUGGAAUUAUCUAAUUCCCAGGCAUAAGCUGAAUACGAGUUUAUAUGUAAAUGCGGCUGCAU___________________
.((((..((((....................((((.((((((....)))))))))).(((((((.......))))))).))))...))))......................... (-13.07 = -12.82 +  -0.25)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 19,406,051 – 19,406,163
Length 112
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 76.76
Mean single sequence MFE -22.40
Consensus MFE -16.43
Energy contribution -17.37
Covariance contribution 0.94
Combinations/Pair 1.18
Mean z-score -1.94
Structure conservation index 0.73
SVM decision value 1.42
SVM RNA-class probability 0.952589
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19406051 112 - 23771897
GGAUAUGAGCGGCUUGGAUAUGCAGCCGCAUUUACAUAUAAACUCAUAUUCUGCUUAUGCCUGGGAAUUAGAUAAUUCCACAGAAAGUAGUUUUU---AUUGUGUGCAGAGCAAA
((((((((((((((.(......))))))).((((....)))).))))))))(((((.((((((((((((....)))))).)))((((....))))---.......)))))))).. ( -31.40)
>DroSec_CAF1 44967 92 - 1
-------------------AUGCGACCGCAUUUACAUAUAAACUCGUAUUCAGCUUAUGCCUGGG-AUUAGAUAAUUCCACAGAAAGUAGUUUUU---AUUGUGUGUAGAGCAAA
-------------------........((.(((((((((((...........((....))(((((-(.........))).)))............---.)))))))))))))... ( -19.20)
>DroSim_CAF1 45129 93 - 1
-------------------AUGCAGCCGCAUUUACAUAUAAACUCGUAUUCAGCUUAUGCCUGGGAAUUAGAUAAUUCCACAGAAAGUAGUUUUU---AUUGUAUGUAGAGCAAA
-------------------........((.(((((((((((...........((....))(((((((((....)))))).)))............---.)))))))))))))... ( -22.30)
>DroYak_CAF1 71029 96 - 1
-------------------AUGCAGCCACAUUUACAUAUAAACUCACAUUCCUCUUAUACCUCAGAAUUAGAUAAAUCUAAAGAAAGUGGAUUUAAACAUUUUAUGUAAUGUGAU
-------------------.......((((((.(((((((((..(((.(((.(((........))).(((((....))))).))).)))..)))).......))))))))))).. ( -16.71)
>consensus
___________________AUGCAGCCGCAUUUACAUAUAAACUCAUAUUCAGCUUAUGCCUGGGAAUUAGAUAAUUCCACAGAAAGUAGUUUUU___AUUGUAUGUAGAGCAAA
...........................((.(((((((((((.........((((((....(((((((((....)))))).))).)))))).........)))))))))))))... (-16.43 = -17.37 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:04 2006