Locus 7852

Sequence ID 3L_DroMel_CAF1
Location 20,997,230 – 20,997,374
Length 144
Max. P 0.999003
window12783 window12784

overview

Window 3

Location 20,997,230 – 20,997,342
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -26.49
Consensus MFE -22.43
Energy contribution -21.83
Covariance contribution -0.60
Combinations/Pair 1.19
Mean z-score -2.15
Structure conservation index 0.85
SVM decision value 2.25
SVM RNA-class probability 0.991119
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20997230 112 + 23771897
--------UAGCGUGGUUAUUUAAUGAUUGCGAUCAACGAAAUUCUUAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAA
--------....(..((((((((((((((.((.....)).)))).....))))))))))..)....(((((((((......(((((....)))))....(((....)))))))))))).. ( -25.60)
>DroSec_CAF1 14802 112 + 1
--------UAGCGUGGUUAUUUAAUGAUUGCGAUUAACGAAAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUCGUUCCAAUUAAAAUAUUUUGACAUCUAACUGAAA
--------....(..((((((((((....(((.((....)).)))....))))))))))..)....(((((((((..(..((((...((......))...))))..)..))))))))).. ( -26.50)
>DroSim_CAF1 22245 112 + 1
--------UAGCGUGGUUAUUUAAUGAUUGCGAUUAACGAAAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAA
--------....(..((((((((((....(((.((....)).)))....))))))))))..)....(((((((((......(((((....)))))....(((....)))))))))))).. ( -28.30)
>DroEre_CAF1 23551 112 + 1
--------UAGCGUGGUUAUUUAAUGAUUGAGUUUAACGAAAUGCUAAAAUGGAGUAGCUGCUGACUCAGUUGGAAUUUGAAAUUGCUUCCAAUUAAAAUGUUUUGACAUCUGACUGAAA
--------....(..(((((((.........((((....)))).........)))))))..)....(((((..((..(..((((................))))..)..))..))))).. ( -21.36)
>DroYak_CAF1 21000 120 + 1
UCUGCAUCUAGCGUGGUUAUUUAAUGAUUGAGUUAAACGAAAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUAAAAUUGCUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAA
...((.....))(..((((((((((..((((((..........))))))))))))))))..)....(((((((((..(((((((................)))))))..))))))))).. ( -30.69)
>consensus
________UAGCGUGGUUAUUUAAUGAUUGCGAUUAACGAAAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAA
............(..((((((((((........................))))))))))..)....(((((((((..(((((((................)))))))..))))))))).. (-22.43 = -21.83 +  -0.60)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,997,262 – 20,997,374
Length 112
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 94.02
Mean single sequence MFE -23.88
Consensus MFE -21.05
Energy contribution -20.45
Covariance contribution -0.60
Combinations/Pair 1.18
Mean z-score -2.40
Structure conservation index 0.88
SVM decision value 3.32
SVM RNA-class probability 0.999003
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20997262 112 + 23771897
AAUUCUUAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAAUCUACGACAGUCCAUAUAUGUCAACUUAAUUA
........((((((((..........(((((((((......(((((....)))))....(((....)))))))))))).......((((.........)))).)))))))). ( -23.20)
>DroSec_CAF1 14834 112 + 1
AAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUCGUUCCAAUUAAAAUAUUUUGACAUCUAACUGAAAUCUGCGACAGCCCAUAUAUGUCAACUUAAUUA
........((((((((....((.((.(((((((((..(..((((...((......))...))))..)..)))))))))..)).))((((.........)))).)))))))). ( -24.30)
>DroSim_CAF1 22277 112 + 1
AAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAAUCUGCGACAGCCCAUAUAUGUCAACUUAAUUA
........((((((((....((.((.(((((((((......(((((....)))))....(((....))))))))))))..)).))((((.........)))).)))))))). ( -26.10)
>DroEre_CAF1 23583 112 + 1
AAUGCUAAAAUGGAGUAGCUGCUGACUCAGUUGGAAUUUGAAAUUGCUUCCAAUUAAAAUGUUUUGACAUCUGACUGAAAUCCACGGCAGUCCAUAUAUGUCAACUUAAUUA
.........(((((.(.((((..((.(((((..((..(..((((................))))..)..))..)))))..))..))))).)))))................. ( -23.89)
>DroYak_CAF1 21040 112 + 1
AAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUAAAAUUGCUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAAUCCACGACAGUCCAUAUAUGUCAACUUAAUUA
........((((((((..........(((((((((..(((((((................)))))))..))))))))).......((((.........)))).)))))))). ( -21.89)
>consensus
AAUGCUCAAAUUAAGUAACUGCUGACUCAGUUGGAAUUUGAAAUUGGUUCCAAUUAAAAUGUUUUGACAUCUAACUGAAAUCUACGACAGUCCAUAUAUGUCAACUUAAUUA
........((((((((..........(((((((((..(((((((................)))))))..))))))))).......((((.........)))).)))))))). (-21.05 = -20.45 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:40 2006