Locus 3253

Sequence ID 2L_DroMel_CAF1
Location 9,397,173 – 9,397,361
Length 188
Max. P 0.578997
window5164 window5165

overview

Window 4

Location 9,397,173 – 9,397,293
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.67
Mean single sequence MFE -41.58
Consensus MFE -37.86
Energy contribution -37.06
Covariance contribution -0.80
Combinations/Pair 1.12
Mean z-score -1.19
Structure conservation index 0.91
SVM decision value 0.09
SVM RNA-class probability 0.578997
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9397173 120 + 22407834
UCUCUACUUGGCAAACGGCUUCUUGGUGACCACAUUGGCUGCUUUCUUCUCCGCUUCACGCCUAGCAGCGGUUUCUUCGCGCUGCUUCCGGAUCAGAGCCAGCCUGGCCAAGUCGGCCCU
..((.(((((((....(((........).)).....(((((..((((..(((((.....))..((((((((......).)))))))...)))..)))).)))))..))))))).)).... ( -38.90)
>DroSec_CAF1 25976 120 + 1
UCUCUACUUGGCAAACGGCUUCUUGGUGACCACAUUGGCUGCUUUCUUCUCCGCUUCACGCCUGGCAGCGGUCUCUUCGCGCUGCUUCCGGAUCAGAGCCAGCCUGGCCAAGUCGGCCAU
................((((.(((((...(((....(((((..((((..(((((.....))..((((((((......).)))))))...)))..)))).)))))))))))))..)))).. ( -39.60)
>DroSim_CAF1 28051 120 + 1
UCUCUACUUGGCAAAAGGCUUCUUGGUGACCACAUUGGCUGCCUUCUUCUCCGCUUCACGCCUGGCAGCGGUCUCUUCGCGCUGCUUUCGGAUCAGAGCCAGCCUGGCCAAGUCGGCCAU
..((.(((((((...(((((....(((..((.....))..))).........((((....((.((((((((......).)))))))...))....)))).))))).))))))).)).... ( -43.40)
>DroEre_CAF1 26374 120 + 1
CCUCUACUUGGCAAACGGCUUCUUGGUGACCGCAACGGCGGCCUUCUUCUCCGCCUCCCGCCUGGCGGCGGUUUCCUCGCGCUGCUUCCGGAUGAGAGCCAGCCUGGCCAAGUCGGCCCU
..((.(((((((....((((....((.((((((....))))......)).))((((((((...((((((((......).)))))))..)))..))).)).))))..))))))).)).... ( -43.90)
>DroYak_CAF1 27663 120 + 1
UCUCUACUUGGCAAACGGCUUCUUGGUGACCAUAUCGGCUGCCUUCUUGUCCGCCGCCCGCUUGGCGGCGGUUUCCUCACGUUGCUUCCGGAUCAGAGCCAAUCUGGCCAAGUCGGCCCU
..((.(((((((....(((.....(((..((.....))..))).(((.((((((((((.....))))))((................)))))).))))))......))))))).)).... ( -42.09)
>consensus
UCUCUACUUGGCAAACGGCUUCUUGGUGACCACAUUGGCUGCCUUCUUCUCCGCUUCACGCCUGGCAGCGGUUUCUUCGCGCUGCUUCCGGAUCAGAGCCAGCCUGGCCAAGUCGGCCCU
..((.(((((((....(((.....(((..((.....))..))).(((..(((((.....))..((((((((......).)))))))...)))..))))))......))))))).)).... (-37.86 = -37.06 +  -0.80)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 9,397,253 – 9,397,361
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.83
Mean single sequence MFE -45.62
Consensus MFE -31.22
Energy contribution -31.82
Covariance contribution 0.60
Combinations/Pair 1.13
Mean z-score -1.64
Structure conservation index 0.68
SVM decision value -0.00
SVM RNA-class probability 0.532232
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9397253 108 - 22407834
GCGAUCAA------------GAUCAGAGUGCUCGCAAGCGUUACGAGAAACUCCAUGUAGCUGGGAAAACCACCGAGGCUAGGGCCGACUUGGCCAGGCUGGCUCUGAUCCGGAAGCAGC
((..((..------------(((((((((.((((.....((((((.(......).))))))(((.....))).))))(((..((((.....)))).)))..)))))))))..)).))... ( -39.70)
>DroSec_CAF1 26056 120 - 1
GUGAUCGAGAGCAGGACAAGGAUCAGAGUGCUCGCAAGCGUUACGAGAAACUCCACGUCGCUGGAAAAACCACCGAGGCUAUGGCCGACUUGGCCAGGCUGGCUCUGAUCCGGAAGCAGC
..........((.......((((((((((.((((..((((..(((.(......).)))))))((.....))..))))(((.(((((.....))))))))..))))))))))....))... ( -40.20)
>DroSim_CAF1 28131 120 - 1
GUGAUCGAGAGCAGGACAAGGAUCAGAGUGCUCGCAAGCGUUACGAGAAACUCCACGUCGCUGGAAAAACCACCGAGGCUAUGGCCGACUUGGCCAGGCUGGCUCUGAUCCGAAAGCAGC
..........((.......((((((((((.((((..((((..(((.(......).)))))))((.....))..))))(((.(((((.....))))))))..))))))))))....))... ( -40.20)
>DroEre_CAF1 26454 120 - 1
ACGGCCGAGAUCAGCCCAAGGAGCAGAGUGGGCGCCAGCGCUAUGAGAAGCUCCAGUCCGCUGGCAAGACCACCGAGGCUAGGGCCGACUUGGCCAGGCUGGCUCUCAUCCGGAAGCAGC
..(((((((.((.((((..(((((......((((....)))).......)))))((((((.(((.....))).)).)))).)))).)))))))))..((((.((..(....)..)))))) ( -54.02)
>DroYak_CAF1 27743 120 - 1
GCGGCCGAGAUUCGGCCAAGGAUCAGAGUGCACGUCAGCGUUAUGAGAAACUCCAUACCGCUGGUAAAACCACCGAGGCUAGGGCCGACUUGGCCAGAUUGGCUCUGAUCCGGAAGCAAC
(((((((.....)))))..((((((((((.((.(((((((.((((.(.....))))).))))(((......)))..(((((((.....))))))).)))))))))))))))....))... ( -54.00)
>consensus
GCGAUCGAGAGCAGGACAAGGAUCAGAGUGCUCGCAAGCGUUACGAGAAACUCCACGUCGCUGGAAAAACCACCGAGGCUAGGGCCGACUUGGCCAGGCUGGCUCUGAUCCGGAAGCAGC
...................(((((((((...((.(.((((....(((...))).....)))))))....(((((..(((((((.....))))))).)).))))))))))))......... (-31.22 = -31.82 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:02 2006