Locus 9623

Sequence ID 3R_DroMel_CAF1
Location 25,410,269 – 25,410,373
Length 104
Max. P 0.614793
window15381 window15382

overview

Window 1

Location 25,410,269 – 25,410,373
Length 104
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 85.70
Mean single sequence MFE -29.13
Consensus MFE -26.00
Energy contribution -25.83
Covariance contribution -0.16
Combinations/Pair 1.18
Mean z-score -1.42
Structure conservation index 0.89
SVM decision value 0.17
SVM RNA-class probability 0.614793
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25410269 104 + 27905053
UUAUUCAACUU-GGCUACACUUUCUCCCAGUGCACUCCUCUAGUUGUGUCGCGUUCUCCUUCGCUGUGGCAUUGGCCAAUUUGUGGCACUGGGUGAAAUCAUUGG
...........-........((((.((((((((((...............(((........)))..((((....))))....)).)))))))).))))....... ( -28.60)
>DroSec_CAF1 94201 102 + 1
UUAUUAAAUUU-AGCUACAAUUUCUCCCAGUGCACUCC--UAGUUGUGUCGCGUUCUCCUUCGCUGUGGCAUUGGCCAAUUUGUGGCACUGGGUGAAAUCAUUGG
...........-.......(((((.((((((((((...--..........(((........)))..((((....))))....)).)))))))).)))))...... ( -29.40)
>DroSim_CAF1 94635 102 + 1
CUAUUCAAUUU-AGCUACAAUUUCUCCCAGUGCACUCC--UAGUUGUGUCGCGUUCUCCUUCGCUGUGGCAUUGGCCAAUUUGUGGCACUGGGUGAAAUCAUUGG
...........-.......(((((.((((((((((...--..........(((........)))..((((....))))....)).)))))))).)))))...... ( -29.40)
>DroEre_CAF1 98132 102 + 1
UUGAUCAUUUU-AGCCACCAUUUCUGCCAGUGCAGUCC--UAGUAGUGCCGCGGUCUCCUUCGCUGUGGCAUUGGCCAAUUUGUGGCACUGGGUGAAAUCAUUGG
(..((.(((((-(..........((((....)))).((--(((((((((((((((.......))))))))))).((((.....)))))))))))))))).))..) ( -34.20)
>DroYak_CAF1 101985 102 + 1
UUUUUAAUUGU-AGCCAUAUUUUCUGCCAGUGCAUUAC--UAGUAGUGUCGCGUUCUCCUUCGCGGUGGCAUUGGCCAAUUUGUGGCACUGGGUGAAAUCAUUGG
.(((((...((-.((((((..((..((((((((((((.--...)))).(((((........)))))..)))))))).))..))))))))....)))))....... ( -30.80)
>DroAna_CAF1 102181 99 + 1
ACAUUCGUUUAAAGCCA-AUUUUCUCUCAGUGUAC-----UGAUGGUAUCGCGUUCUCCUUCGUUGUGGCAUUGGCCAAUAUGUGGCACUAGGUGAAAUCAUUGG
..............(((-((((((.(..(((((.(-----..(((.(((.(((........))).))).)))..).((.....)))))))..).))))..))))) ( -22.40)
>consensus
UUAUUCAAUUU_AGCCACAAUUUCUCCCAGUGCACUCC__UAGUUGUGUCGCGUUCUCCUUCGCUGUGGCAUUGGCCAAUUUGUGGCACUGGGUGAAAUCAUUGG
..............(((...((((.((((((((.................(((........)))..((((....)))).......)))))))).))))....))) (-26.00 = -25.83 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 2

Location 25,410,269 – 25,410,373
Length 104
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 85.70
Mean single sequence MFE -27.82
Consensus MFE -21.42
Energy contribution -22.12
Covariance contribution 0.69
Combinations/Pair 1.05
Mean z-score -2.16
Structure conservation index 0.77
SVM decision value 0.16
SVM RNA-class probability 0.614156
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25410269 104 - 27905053
CCAAUGAUUUCACCCAGUGCCACAAAUUGGCCAAUGCCACAGCGAAGGAGAACGCGACACAACUAGAGGAGUGCACUGGGAGAAAGUGUAGCC-AAGUUGAAUAA
.((((..((((.((((((((.((....((((....))))..(((........)))...............)))))))))).))))........-..))))..... ( -28.40)
>DroSec_CAF1 94201 102 - 1
CCAAUGAUUUCACCCAGUGCCACAAAUUGGCCAAUGCCACAGCGAAGGAGAACGCGACACAACUA--GGAGUGCACUGGGAGAAAUUGUAGCU-AAAUUUAAUAA
...(..(((((.((((((((.((....((((....))))..(((........)))..........--...)))))))))).)))))..)....-........... ( -31.60)
>DroSim_CAF1 94635 102 - 1
CCAAUGAUUUCACCCAGUGCCACAAAUUGGCCAAUGCCACAGCGAAGGAGAACGCGACACAACUA--GGAGUGCACUGGGAGAAAUUGUAGCU-AAAUUGAAUAG
...(..(((((.((((((((.((....((((....))))..(((........)))..........--...)))))))))).)))))..)....-........... ( -31.60)
>DroEre_CAF1 98132 102 - 1
CCAAUGAUUUCACCCAGUGCCACAAAUUGGCCAAUGCCACAGCGAAGGAGACCGCGGCACUACUA--GGACUGCACUGGCAGAAAUGGUGGCU-AAAAUGAUCAA
....((((((((((.((((((......((((....))))..(((..(....))))))))))....--...((((....))))....)))))..-.....))))). ( -32.11)
>DroYak_CAF1 101985 102 - 1
CCAAUGAUUUCACCCAGUGCCACAAAUUGGCCAAUGCCACCGCGAAGGAGAACGCGACACUACUA--GUAAUGCACUGGCAGAAAAUAUGGCU-ACAAUUAAAAA
(((.((.((((..(((((((.......((((....)))).((((........)))).........--.....)))))))..)))).)))))..-........... ( -25.60)
>DroAna_CAF1 102181 99 - 1
CCAAUGAUUUCACCUAGUGCCACAUAUUGGCCAAUGCCACAACGAAGGAGAACGCGAUACCAUCA-----GUACACUGAGAGAAAAU-UGGCUUUAAACGAAUGU
(((((..((((.....(((........((((....))))...(....)....))).......(((-----(....))))))))..))-))).............. ( -17.60)
>consensus
CCAAUGAUUUCACCCAGUGCCACAAAUUGGCCAAUGCCACAGCGAAGGAGAACGCGACACAACUA__GGAGUGCACUGGGAGAAAUUGUAGCU_AAAAUGAAUAA
.......((((.((((((((.......((((....))))..(((........))).................)))))))).)))).................... (-21.42 = -22.12 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:30 2006