Locus 4176

Sequence ID 3L_DroMel_CAF1
Location 12,190,964 – 12,191,101
Length 137
Max. P 0.938168
window6479 window6480

overview

Window 9

Location 12,190,964 – 12,191,076
Length 112
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 91.25
Mean single sequence MFE -32.16
Consensus MFE -23.76
Energy contribution -25.28
Covariance contribution 1.52
Combinations/Pair 1.08
Mean z-score -2.12
Structure conservation index 0.74
SVM decision value 0.55
SVM RNA-class probability 0.777560
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12190964 112 + 23771897
CCAUUGAAAUUUGAUUCCGUGAAUCUCCGACUUCCCUGGCAUCCGGUGCAUCAUGCAGUGCAUCCAAACGGCAAAA-UGCAGGCAACGCUUGCCAUUGGAUUUACUGCAGCAU
(((..(((.((.(((((...)))))...)).)))..)))......((((....(((((((.((((((..(((((..-.((.(....)))))))).)))))).))))))))))) ( -33.30)
>DroSec_CAF1 5285 110 + 1
CCAUUGAAAUUUGAUUCCGUGAAUCUCCGACUUCCCUGGCAUCCGGUGCA---UGCAGUGCAUCCAAACGGCGAAAUUGCAGGCAACGCUUGCCAUUGGAUUUACUGCAGCAU
(((..(((.((.(((((...)))))...)).)))..)))......((((.---(((((((.((((((..(((((....((.(....)))))))).)))))).))))))))))) ( -35.00)
>DroSim_CAF1 5335 110 + 1
CCAUUGAAAUUUGAUUCCGUGAAUCUCCGACUUCCCUGGCAUCCGGUGCA---UGCAGUGCAUCCAAACGGCAAAAUUGCAGGCAACGCUUGCCAUUGGAUUUACUGCAGCAU
(((..(((.((.(((((...)))))...)).)))..)))......((((.---(((((((.((((((..(((((....((.(....)))))))).)))))).))))))))))) ( -35.30)
>DroEre_CAF1 5347 109 + 1
CCAUUGAAAUUAGAUUCCCUGAAUCUCCGACUUCCCUGGCAUCCAGUGCA---UGCAGUGCAUCCAAACGCCAAAA-UGCAGGCAGCGCUUGCCAUUGGAUUUACUGCAGCAU
(((..(((.((((((((...))))))..)).)))..)))......((((.---(((((((.((((((..((.....-.)).(((((...))))).)))))).))))))))))) ( -34.20)
>DroYak_CAF1 5421 100 + 1
CCAUUGAAAUUUGAUUCCCUGAAUCUCCGACUUUCCUGGCAUCCUGU------------GCAUCCAAACGCCAAAA-UGCAGGCAACGCUUGCCUUUGGAUUUAGUGCAGCAU
.(((((((....(((((...)))))(((((........((((..((.------------((........))))..)-)))(((((.....)))))))))))))))))...... ( -23.00)
>consensus
CCAUUGAAAUUUGAUUCCGUGAAUCUCCGACUUCCCUGGCAUCCGGUGCA___UGCAGUGCAUCCAAACGGCAAAA_UGCAGGCAACGCUUGCCAUUGGAUUUACUGCAGCAU
(((..(((.((.(((((...)))))...)).)))..)))......((((....(((((((.((((((...(((....))).(((((...))))).)))))).))))))))))) (-23.76 = -25.28 +   1.52)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,191,002 – 12,191,101
Length 99
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 91.11
Mean single sequence MFE -36.14
Consensus MFE -28.66
Energy contribution -30.14
Covariance contribution 1.48
Combinations/Pair 1.06
Mean z-score -2.08
Structure conservation index 0.79
SVM decision value 1.29
SVM RNA-class probability 0.938168
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12191002 99 + 23771897
GCAUCCGGUGCAUCAUGCAGUGCAUCCAAACGGCAAAA-UGCAGGCAACGCUUGCCAUUGGAUUUACUGCAGCAUUUGGUGGGCGACGAGUGUGGCAUGC
.((((..((((....(((((((.((((((..(((((..-.((.(....)))))))).)))))).)))))))))))..)))).((.((....)).)).... ( -38.10)
>DroSec_CAF1 5323 97 + 1
GCAUCCGGUGCA---UGCAGUGCAUCCAAACGGCGAAAUUGCAGGCAACGCUUGCCAUUGGAUUUACUGCAGCAUUUGGUGGGCGACGAGUGUGGCAUGC
.((((..((((.---(((((((.((((((..(((((....((.(....)))))))).)))))).)))))))))))..)))).((.((....)).)).... ( -39.80)
>DroSim_CAF1 5373 97 + 1
GCAUCCGGUGCA---UGCAGUGCAUCCAAACGGCAAAAUUGCAGGCAACGCUUGCCAUUGGAUUUACUGCAGCAUUUGGUGGGCGACGAGUGUGGCAUGC
.((((..((((.---(((((((.((((((..(((((....((.(....)))))))).)))))).)))))))))))..)))).((.((....)).)).... ( -40.10)
>DroEre_CAF1 5385 96 + 1
GCAUCCAGUGCA---UGCAGUGCAUCCAAACGCCAAAA-UGCAGGCAGCGCUUGCCAUUGGAUUUACUGCAGCAUUUGGUGGGCGACGAGUGUGGCAUGC
.((((.(((((.---(((((((.((((((..((.....-.)).(((((...))))).)))))).)))))))))))).)))).((.((....)).)).... ( -37.90)
>DroYak_CAF1 5459 87 + 1
GCAUCCUGU------------GCAUCCAAACGCCAAAA-UGCAGGCAACGCUUGCCUUUGGAUUUAGUGCAGCAUUUGGUGGGCGACGAGUGUGACAUGC
((((....(------------((((.......(((((.-.((((((...)))))).))))).....)))))(((((((........)))))))...)))) ( -24.80)
>consensus
GCAUCCGGUGCA___UGCAGUGCAUCCAAACGGCAAAA_UGCAGGCAACGCUUGCCAUUGGAUUUACUGCAGCAUUUGGUGGGCGACGAGUGUGGCAUGC
((((((.........(((((((.((((((...(((....))).(((((...))))).)))))).)))))))(((((((........))))))))).)))) (-28.66 = -30.14 +   1.48)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:09 2006