Locus 8426

Sequence ID X_DroMel_CAF1
Location 20,914,706 – 20,914,836
Length 130
Max. P 0.662158
window13843 window13844

overview

Window 3

Location 20,914,706 – 20,914,806
Length 100
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 77.84
Mean single sequence MFE -29.07
Consensus MFE -19.74
Energy contribution -20.60
Covariance contribution 0.86
Combinations/Pair 1.09
Mean z-score -1.05
Structure conservation index 0.68
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20914706 100 - 22224390
UGAUGCUGGACGGACAGCAAUUUACCUGGCAGAGUGGUGCACAAUAUCCAGAGACUGGACUUGGUGUACUUGGUGAUGUAGGCGCCAUCGUCCAGGGCUU
...(((((......))))).....(((((..((..(((((((....(((((...)))))....)))))))(((((.......)))))))..))))).... ( -36.30)
>DroVir_CAF1 140 85 - 1
---------------UUUCACUCACCUGGCAGCGUUGUGCACAGUAUCCAGAGGCUAGAUUUGGUAUAUUUUGUUACAUAGGCGCCAUCGUCCAGUGCAU
---------------...((((.((.((((.((.(((((((.((((((((((.......))))).))))).)).)))).).))))))..))..))))... ( -21.20)
>DroEre_CAF1 2654 88 - 1
--------CAGAGCA----ACUCACCGGGCAGAGUGGUGCACAAAAUCCAGAGACUGGACUUGGUGUACUUGGUGAUGUAGGCGCCGUCGUCCAGGGCCU
--------....(((----..((((((........(((((((.((.(((((...))))).)).))))))))))))))))((((.((........)))))) ( -29.30)
>DroYak_CAF1 3087 92 - 1
--------CACAGCAGCUAACUCACCUGGCAGAGUGGUGCACAAUAUCCAGAGACUGGACUUGGUGUACUUGGUGAUGUAGGCGCCAUCGUCCAGGGCCU
--------.(((...((((((((........))))(((((((....(((((...)))))....)))))))))))..)))((((.((........)))))) ( -29.30)
>DroAna_CAF1 2823 87 - 1
--------CACUG-----CACUCACCUGGCAGGGUGGUGCACAAUAUCCAUAGACUGGACUUGGUGUAUUUGGUGAUGUAGGCGCCGUCGUCCAGGGCAU
--------...((-----(((.(((((....)))))))))).............((((((.((((((..............))))))..))))))..... ( -30.54)
>DroPer_CAF1 7035 81 - 1
-------------------GCUUACCUGGCAAUGUUGUGCACAAUAUCCAGAGGCUGGACUUUGUGUAUUUGGUGAUGUAGGCGCCAUCGUCCAGAGCGU
-------------------(((...(((((......((((((((..(((((...)))))..)))))))).(((((.......)))))..).))))))).. ( -27.80)
>consensus
________CAC_G______ACUCACCUGGCAGAGUGGUGCACAAUAUCCAGAGACUGGACUUGGUGUACUUGGUGAUGUAGGCGCCAUCGUCCAGGGCAU
........................((((((......((((((....(((((...)))))....)))))).(((((.......)))))..).))))).... (-19.74 = -20.60 +   0.86)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,914,746 – 20,914,836
Length 90
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 79.20
Mean single sequence MFE -29.32
Consensus MFE -18.70
Energy contribution -20.62
Covariance contribution 1.92
Combinations/Pair 1.27
Mean z-score -1.72
Structure conservation index 0.64
SVM decision value 0.27
SVM RNA-class probability 0.662158
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20914746 90 - 22224390
GUGCAAAU---GGUUCCAAGGAAUGUGGUGCUGUGAUGCUGGACGGACAGCAAUUUACCUGGCAGAGUGGUGCACAAUAUCCAGAGACUGGAC
(((((...---.((((....))))....(((((((((((((......)))))..))))..))))......)))))....(((((...))))). ( -26.70)
>DroSec_CAF1 2746 90 - 1
GUGCAAAA---GCUGCCAAGGAAUGUGGUGCUGUGAUGCUGGACGGACAUCAACUCACCUGGCAGAGUGGUGCACAAUAUCCAGAGACUGGAC
(((((.(.---.((((((.((....(((((((((........)))).))))).....))))))))..)..)))))....(((((...))))). ( -34.20)
>DroSim_CAF1 2502 90 - 1
GUGCAAAA---GCUGCCAAGGAAUGUGGUGCUGUGAUGCUGGACGGACAUCAACUCACCUGGCAGAGUGGUGCAUAAUAUCCAGAGACUGGAC
(((((.(.---.((((((.((....(((((((((........)))).))))).....))))))))..)..)))))....(((((...))))). ( -31.90)
>DroEre_CAF1 2694 78 - 1
GUGCAGGA---GCUGUCGAGCAAUGUGGUGCUG--------CAGAGCA----ACUCACCGGGCAGAGUGGUGCACAAAAUCCAGAGACUGGAC
(((((.(.---.((((..((((......)))))--------)))..).----((((........))))..)))))....(((((...))))). ( -23.40)
>DroYak_CAF1 3127 85 - 1
GCGCAAAAUGUGGUGUCGGGUAGUGUGGUGCUG--------CACAGCAGCUAACUCACCUGGCAGAGUGGUGCACAAUAUCCAGAGACUGGAC
((((...((....((((((((.(.((...((((--------(...)))))..)).)))))))))..)).))))......(((((...))))). ( -30.40)
>consensus
GUGCAAAA___GCUGCCAAGGAAUGUGGUGCUGUGAUGCUGGACGGACAUCAACUCACCUGGCAGAGUGGUGCACAAUAUCCAGAGACUGGAC
(((((.......((((((.(.....(((((((((........)))).))))).....).)))))).....)))))....(((((...))))). (-18.70 = -20.62 +   1.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:44 2006