Locus 1586

Sequence ID 2L_DroMel_CAF1
Location 4,264,194 – 4,264,284
Length 90
Max. P 0.973333
window2549 window2550

overview

Window 9

Location 4,264,194 – 4,264,284
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 93.00
Mean single sequence MFE -23.42
Consensus MFE -19.32
Energy contribution -19.56
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.67
Structure conservation index 0.82
SVM decision value 0.88
SVM RNA-class probability 0.874206
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4264194 90 + 22407834
AAACCCGCACAAAGCCGGAAAACGUGGCAAUUGUGUGCUGGCCCAGCAUCUCAAACCCAUGUCCUCCUUCUACAUGGCACCUGGAGAAAA
......((((((.((((.......))))..))))))((((...)))).((((....((((((.........))))))......))))... ( -22.70)
>DroSec_CAF1 18830 90 + 1
AAACCCGCACAAAGCCGGAAAACGUGGCAAUUGUGUGCUGUGCCAGCAUCUCAAACCCAUGUCCUCCUUCCACUUUGCACCUGGAGAAAA
....(((..(((((..(((..((((((...(((.((((((...))))))..)))..))))))..))).....)))))....)))...... ( -21.90)
>DroSim_CAF1 20072 90 + 1
AAACCCGCACAAAGCCGGAAAACGUGGCAAUUGUGUGCUGGCCCAGCAUCUCAAACCCAUGUCCUCCUACUACUUUGCACUUGGAGAAAA
....(((..(((((..(((..((((((...(((.((((((...))))))..)))..))))))..))).....)))))....)))...... ( -21.90)
>DroEre_CAF1 14155 90 + 1
AAACCCGCACAAAGCCGGAAAACGUGGCAAUUGAGUGCCGGCCCAGCAUCUCAAACCCACGUCCUCCUCUUACUGUGCACCUGGAGAAAA
......((((((((..(((..((((((...((((((((.......))).)))))..))))))..))).)))..)))))............ ( -28.00)
>DroYak_CAF1 17110 90 + 1
AAACCCGCACAAAGCCGGAAAACGUGGCAAUUGUGUGCCGGCCCAGCAUCUCAAAACCAUGUCCUCCCUCUACUGUGCACCUGGAGAAAA
......(((((.((..(((..((((((...(((.((((.......))))..)))..))))))..)))..))..)))))............ ( -22.60)
>consensus
AAACCCGCACAAAGCCGGAAAACGUGGCAAUUGUGUGCUGGCCCAGCAUCUCAAACCCAUGUCCUCCUUCUACUUUGCACCUGGAGAAAA
...((.((.....)).))...((((((...(((.((((((...))))))..)))..)))))).((((...............)))).... (-19.32 = -19.56 +   0.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 4,264,194 – 4,264,284
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 93.00
Mean single sequence MFE -31.26
Consensus MFE -28.72
Energy contribution -29.28
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.58
Structure conservation index 0.92
SVM decision value 1.71
SVM RNA-class probability 0.973333
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4264194 90 - 22407834
UUUUCUCCAGGUGCCAUGUAGAAGGAGGACAUGGGUUUGAGAUGCUGGGCCAGCACACAAUUGCCACGUUUUCCGGCUUUGUGCGGGUUU
......((..(..(...((....(((((((.(((..(((.(.(((((...)))))).)))...))).))))))).))...)..).))... ( -24.80)
>DroSec_CAF1 18830 90 - 1
UUUUCUCCAGGUGCAAAGUGGAAGGAGGACAUGGGUUUGAGAUGCUGGCACAGCACACAAUUGCCACGUUUUCCGGCUUUGUGCGGGUUU
......((..(..((((((....(((((((.(((..(((.(.(((((...)))))).)))...))).))))))).))))))..).))... ( -31.00)
>DroSim_CAF1 20072 90 - 1
UUUUCUCCAAGUGCAAAGUAGUAGGAGGACAUGGGUUUGAGAUGCUGGGCCAGCACACAAUUGCCACGUUUUCCGGCUUUGUGCGGGUUU
......((..(..((((((....(((((((.(((..(((.(.(((((...)))))).)))...))).))))))).))))))..).))... ( -31.20)
>DroEre_CAF1 14155 90 - 1
UUUUCUCCAGGUGCACAGUAAGAGGAGGACGUGGGUUUGAGAUGCUGGGCCGGCACUCAAUUGCCACGUUUUCCGGCUUUGUGCGGGUUU
......((..(..((.(((....(((((((((((..(((((.(((((...))))))))))...))))))))))).))).))..).))... ( -38.50)
>DroYak_CAF1 17110 90 - 1
UUUUCUCCAGGUGCACAGUAGAGGGAGGACAUGGUUUUGAGAUGCUGGGCCGGCACACAAUUGCCACGUUUUCCGGCUUUGUGCGGGUUU
...........(((((((.((..(((((((.((((.(((.(.(((((...)))))).)))..)))).)))))))..)))))))))..... ( -30.80)
>consensus
UUUUCUCCAGGUGCAAAGUAGAAGGAGGACAUGGGUUUGAGAUGCUGGGCCAGCACACAAUUGCCACGUUUUCCGGCUUUGUGCGGGUUU
......((..(..((((((....(((((((.(((..(((.(.(((((...)))))).)))...))).))))))).))))))..).))... (-28.72 = -29.28 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:02 2006