Locus 4558

Sequence ID 2L_DroMel_CAF1
Location 13,061,861 – 13,061,967
Length 106
Max. P 0.803503
window7180 window7181

overview

Window 0

Location 13,061,861 – 13,061,967
Length 106
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 82.26
Mean single sequence MFE -22.64
Consensus MFE -16.92
Energy contribution -18.78
Covariance contribution 1.86
Combinations/Pair 1.08
Mean z-score -2.04
Structure conservation index 0.75
SVM decision value 0.62
SVM RNA-class probability 0.803503
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13061861 106 + 22407834
UUU----------UGCUCGUUUUACCAUUUCUCCCUCGAGUUCUCCUUAAACUCAACAGUCAUCCGAAAAUUUUGCAUGCCUUGGCAGAAACAAAGCGAGCGCAAAAUAUUCUGCC
...----------.(((((((((....(((((.((..(((((.......)))))...((.(((.(((.....))).))).)).)).))))).)))))))))(((........))). ( -23.80)
>DroSec_CAF1 43484 106 + 1
UUU----------UGCUCGUUUUACCAUUUCUCCCUCGAGUUUCCCUCAAACUCAACAGUCAUCCGAAAAUUUUGCAUGCCUUGGCAGAAACAAAGCGAGCGCAAAAUAUUCUGCC
...----------.(((((((((....(((((.((..((((((.....))))))...((.(((.(((.....))).))).)).)).))))).)))))))))(((........))). ( -24.90)
>DroSim_CAF1 39148 106 + 1
UUU----------UGCUCGUUUUACCAUUUCUCCCUCGAGUUUUCCUCAAACUCAACAGUCAUCCGAAAAUUUUGCAUGCCUUGGCAGAAACAAAGCGAGCGCAAAAUAUUCUGCC
...----------.(((((((((....(((((.((..((((((.....))))))...((.(((.(((.....))).))).)).)).))))).)))))))))(((........))). ( -24.90)
>DroEre_CAF1 43216 106 + 1
UUU----------UGCUCGCUUUACCAUUCCUCCCCCGAGUUUUGCUCAAACUCAUCCGCCAUCCGAAAAUUUUGCAUGCCUUGGCAGAAACAAAGCGAGCGCAAAAUGUUCUGCC
...----------.(((((((((..............((((((.....)))))).((.((((....................)))).))...)))))))))(((........))). ( -26.95)
>DroYak_CAF1 43063 106 + 1
UUU----------UGCUCGCUGUACCAUUCCUCCCUCGAGUUUUCCUCGAACUCAUCCGCCAUCCGAAAAUUUUGCAUGCCUUGGCAGAAACAAAGCGAGCGCAAAAUGUUCUGCC
...----------.(((((((................((((((.....)))))).((.((((....................)))).)).....)))))))(((........))). ( -25.55)
>DroAna_CAF1 31810 111 + 1
GAUAAAUUCCCAAAUCCCUUUUAACCUCGAUUCCAUCAGAUUCUCCUCCUA-----CCACCAGUCGAAAAUUUUCCAUGCCCCGGCAGAAACAAAGCAAGCGCAAAAUCUUUUGCC
..........................((((((......((......))...-----.....))))))................(((((((.....((....))......))))))) (  -9.74)
>consensus
UUU__________UGCUCGUUUUACCAUUUCUCCCUCGAGUUUUCCUCAAACUCAACAGCCAUCCGAAAAUUUUGCAUGCCUUGGCAGAAACAAAGCGAGCGCAAAAUAUUCUGCC
..............(((((((((..............((((((.....))))))................((((((........))))))..)))))))))(((........))). (-16.92 = -18.78 +   1.86)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 13,061,861 – 13,061,967
Length 106
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 82.26
Mean single sequence MFE -31.77
Consensus MFE -20.79
Energy contribution -22.35
Covariance contribution 1.56
Combinations/Pair 1.23
Mean z-score -2.09
Structure conservation index 0.65
SVM decision value 0.35
SVM RNA-class probability 0.700638
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13061861 106 - 22407834
GGCAGAAUAUUUUGCGCUCGCUUUGUUUCUGCCAAGGCAUGCAAAAUUUUCGGAUGACUGUUGAGUUUAAGGAGAACUCGAGGGAGAAAUGGUAAAACGAGCA----------AAA
.(((((....)))))(((((..(..(((((.((..(((((.(.........).))).)).((((((((.....)))))))))).)))))..).....))))).----------... ( -31.30)
>DroSec_CAF1 43484 106 - 1
GGCAGAAUAUUUUGCGCUCGCUUUGUUUCUGCCAAGGCAUGCAAAAUUUUCGGAUGACUGUUGAGUUUGAGGGAAACUCGAGGGAGAAAUGGUAAAACGAGCA----------AAA
.(((((....)))))(((((..(..(((((.((..(((((.(.........).))).)).((((((((.....)))))))))).)))))..).....))))).----------... ( -31.10)
>DroSim_CAF1 39148 106 - 1
GGCAGAAUAUUUUGCGCUCGCUUUGUUUCUGCCAAGGCAUGCAAAAUUUUCGGAUGACUGUUGAGUUUGAGGAAAACUCGAGGGAGAAAUGGUAAAACGAGCA----------AAA
.(((((....)))))(((((..(..(((((.((..(((((.(.........).))).)).((((((((.....)))))))))).)))))..).....))))).----------... ( -31.80)
>DroEre_CAF1 43216 106 - 1
GGCAGAACAUUUUGCGCUCGCUUUGUUUCUGCCAAGGCAUGCAAAAUUUUCGGAUGGCGGAUGAGUUUGAGCAAAACUCGGGGGAGGAAUGGUAAAGCGAGCA----------AAA
.(((((....)))))(((((((((((((((.((..(.(((.(.........).))).)...(((((((.....))))))).)).))))))...))))))))).----------... ( -37.40)
>DroYak_CAF1 43063 106 - 1
GGCAGAACAUUUUGCGCUCGCUUUGUUUCUGCCAAGGCAUGCAAAAUUUUCGGAUGGCGGAUGAGUUCGAGGAAAACUCGAGGGAGGAAUGGUACAGCGAGCA----------AAA
.(((((....)))))((((((((..(((((.((..(.(((.(.........).))).)........(((((.....))))))).)))))..)...))))))).----------... ( -37.20)
>DroAna_CAF1 31810 111 - 1
GGCAAAAGAUUUUGCGCUUGCUUUGUUUCUGCCGGGGCAUGGAAAAUUUUCGACUGGUGG-----UAGGAGGAGAAUCUGAUGGAAUCGAGGUUAAAAGGGAUUUGGGAAUUUAUC
......(((((((.(.((((((........(((((....((((.....)))).)))))))-----)))).).)))))))((((((.((.(((((......))))).))..)))))) ( -21.80)
>consensus
GGCAGAAUAUUUUGCGCUCGCUUUGUUUCUGCCAAGGCAUGCAAAAUUUUCGGAUGACGGUUGAGUUUGAGGAAAACUCGAGGGAGAAAUGGUAAAACGAGCA__________AAA
.(((((....)))))(((((..(..(((((.((..(.(((.(.........).))).)...(((((((.....))))))).)).)))))..).....))))).............. (-20.79 = -22.35 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:58 2006