Locus 132

Sequence ID 2L_DroMel_CAF1
Location 400,531 – 400,651
Length 120
Max. P 0.613969
window204

overview

Window 4

Location 400,531 – 400,651
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.44
Mean single sequence MFE -45.35
Consensus MFE -20.97
Energy contribution -20.50
Covariance contribution -0.47
Combinations/Pair 1.43
Mean z-score -2.48
Structure conservation index 0.46
SVM decision value 0.16
SVM RNA-class probability 0.613969
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 400531 120 - 22407834
GACCGCAAUCACAGCCUUCUCAAAGAGGUGGAGAUGGCCAAUGAGGAGCUGGCGAAGCUCCGGGAGGAGUGCGGCGAGCACAAGUUUGAGAAGCGUCUGCUUAGUGAGCAAGUGGGUGCA
....(((..(((.(((((((((((..(((.......)))........(((.((...(((((....)))))...)).))).....))))))))).)).(((((...))))).)))..))). ( -44.60)
>DroVir_CAF1 42126 120 - 1
GAGCGCAAUCAAGAGCUGCUCAAGGAGCUGGAAACAGCCAACCAGCAGCUGGCCAAGUUGCGCGACGAGUGUGCCGAACACAAGUUCGAGAAGCGGGCGCUCAAGGACCAAGUGGGCGCA
..((((...(...(((((((....(.((((....)))))....)))))))((((..(((....)))((((((.((((((....)))))......).))))))..)).))..)...)))). ( -48.50)
>DroPse_CAF1 37561 120 - 1
GAACGCAAUCAGACGUUGCUCAAAGAAGUGGAAACAGCCAACGAGGAGCUGUCCAAGCUACGCGAGGAAUGCGGCGAGCUAAAGUACGAGAAGCGAGUGCUCAACGAGCAGGUGGGAGCC
...(((..((..((...((((.......((....))(((.....(((....)))..((..(....)....)))))))))....))..))...)))..(((((...)))))(((....))) ( -33.00)
>DroGri_CAF1 42098 120 - 1
GAGCGCAAUCAAAUGCUGCUCAAGGAGCUGGAAACAGCCAACGAUGAGCUGGCCAAGUUGCGUGAGGAGUGCAACGAGCACAAGUACGAGAAGCGUGCGCUCAAGGAGCAAGUGAGCGCA
..((((..(((..(((((((((.(..((((....))))...)..)))))...((..((((((.......))))))((((....(((((.....)))))))))..))))))..))))))). ( -48.40)
>DroYak_CAF1 16437 120 - 1
GAGCGCAAUCACGGCCUCCUCAAGGAGGUGGAGCUGGCCAAUGAGGAGCUGGCGAAGCUCCGGGAGGAGUGUAGCGAGCACAAGUACGAGAAGCGUCUGCUCAGCGAGCAAGUGGGUGCA
....(((..(((.((((((....))))))...(((.((...((((..(((.((...(((((....)))))...)).)))...((.(((.....))))).)))))).)))..)))..))). ( -52.30)
>DroMoj_CAF1 20130 120 - 1
GAACGAAAUCAAUUGCUGCUCAAGGAGCUGGAAACAGCCAACGAUGAGCUGGCCAAGGUGCGCGAGGAGUGCGCCGAGCACAAGUACGAGAAACGUGCCCUCAAGGAGCAAGUGGGCGCA
...((...(((.(((((.((..(((.(((((...((((((....)).)))).))..(((((((.....))))))).)))....(((((.....))))))))..)).))))).))).)).. ( -45.30)
>consensus
GAGCGCAAUCAAAGGCUGCUCAAGGAGCUGGAAACAGCCAACGAGGAGCUGGCCAAGCUGCGCGAGGAGUGCGGCGAGCACAAGUACGAGAAGCGUGCGCUCAAGGAGCAAGUGGGCGCA
...(((..((....((.((((...))))(((...(((((......).)))).)))......)).....((((.....))))......))...))).(((((((.........))))))). (-20.97 = -20.50 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:26:59 2006