Locus 5250

Sequence ID X_DroMel_CAF1
Location 13,704,702 – 13,704,803
Length 101
Max. P 0.538663
window8509

overview

Window 9

Location 13,704,702 – 13,704,803
Length 101
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 78.21
Mean single sequence MFE -44.65
Consensus MFE -23.76
Energy contribution -25.15
Covariance contribution 1.39
Combinations/Pair 1.29
Mean z-score -1.76
Structure conservation index 0.53
SVM decision value 0.01
SVM RNA-class probability 0.538663
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13704702 101 + 22224390
UCCAGGCAGCUGGCAGUCAAACUCUGGAACGUACAGCCGGUGCUGGCCAACGAGAGGGCCGCCUCCAUAUCGAUGCCAAAGGC---------GGCGGCCAAUGCCGCCAC
....(((.((((((..((........))..)).)))).(((..(((((..(....).(((((((.(((....)))....))))---------))))))))..)))))).. ( -42.30)
>DroVir_CAF1 21321 95 + 1
UCCAGGCAGCUGGCCGUCAAGCUUUGAAUGGUGCAGCUGACGCCGUGCA------GGGCUAUCUCCAUUUCUAUGCCCAAGGC---------GGCGGCCACAGCGGCCGC
....(((.((((((((((.(((((((.(((((((....).)))))).))------)))))..............(((...)))---------)))))))..))).))).. ( -42.90)
>DroPse_CAF1 18596 92 + 1
UCCAGGCAGCUGGCCGUCAGGCUCUGGAAGGUGC------CGCUGGCCAGCGAUAGGGC---CUCCAUGUCGAUGCCGAAGGC---------GGCCGUAAAGGCGGCCAC
....((((((((((((...(((.((....)).))------)..))))))))((((((..---..)).))))..))))...(((---------.(((.....))).))).. ( -47.30)
>DroEre_CAF1 16680 101 + 1
UCCAGGCAGCUGGCCGUAAAACUCUGGAACGUACAGCCGGCGCUGGCCAACGAGAGGGCCGCCUCCAUGUCGAUGCCAAAGGC---------GGCGGCCAAUGCCGCCAC
....(((.((((..(((...........)))..)))).((((.(((((..(....).(((((((.(((....)))....))))---------)))))))).))))))).. ( -46.10)
>DroYak_CAF1 22284 101 + 1
UCCAGGCAGCUGGCCGUCAAACUUUGGAACGUACAGCCGGUGCUGGCCAACGAGAGGGCCGCCUCCAUAUCGAUGCCAAAGGC---------GGCGGCCAAAGCAGCCAC
....(((.((((((((((...((((((...(..((((....))))..)..(((((((....))))....)))...))))))..---------)))))))..))).))).. ( -42.40)
>DroAna_CAF1 18999 110 + 1
UCCAAGCAGCUCGCCGUCAGACUCUGGAAGGUGGAGCAGCUGCUGGCCAGGGAGAGGGCCGCCUCCAUGUCGAUGCCAAAGGCAGCCGCUGCGGCCGCCACGGCCGCCAC
....(((.(((.(((.((...((((((..((..(.....)..))..)))))).)).))).((((.(((....)))....))))))).)))(((((((...)))))))... ( -46.90)
>consensus
UCCAGGCAGCUGGCCGUCAAACUCUGGAACGUACAGCCGGCGCUGGCCAACGAGAGGGCCGCCUCCAUGUCGAUGCCAAAGGC_________GGCGGCCAAAGCCGCCAC
....(((.(((((((((((.....)))...((((.....)))))))))).......(((((((...........(((...))).........)))))))...)).))).. (-23.76 = -25.15 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:18 2006