Locus 5167

Sequence ID 3L_DroMel_CAF1
Location 14,212,630 – 14,212,725
Length 95
Max. P 0.993355
window8182 window8183

overview

Window 2

Location 14,212,630 – 14,212,725
Length 95
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 73.13
Mean single sequence MFE -31.47
Consensus MFE -13.70
Energy contribution -13.87
Covariance contribution 0.17
Combinations/Pair 1.37
Mean z-score -2.70
Structure conservation index 0.44
SVM decision value 2.39
SVM RNA-class probability 0.993355
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14212630 95 + 23771897
AACUUGGCCA-AGAAGUGUGGCCAAGCUGAGUAUGU--------CUGUCUAUGCGUGUGUGCGC--UUAGUUAAUUAGCGGCAUAAUAAUGCACACACACACUCCG
..((((((((-.......))))))))....(((((.--------.....)))))((((((((((--(.........))))((((....)))).)))))))...... ( -33.10)
>DroPse_CAF1 46329 98 + 1
AACUUGGCCAAAGAAGUGUGGCCAACGCAAAUGCUCAUA------CACGCACGUGUAUGUGCGU--CUAGUUAAUUACAGGCAUAAUAAUGCGGAUACACUCUCCU
...(((((((........)))))))((((...((.((((------(((....))))))).))((--((.((.....)))))).......))))............. ( -32.20)
>DroSec_CAF1 47773 95 + 1
AACUUGGCCA-AGAAGUGUGGCCAAGCUGAGGAUGU--------AUGCCCAUGCGUGUGUGCGC--UUAGUUAAUUAGCGGCGUAAUAAUGCACACACACACUCGG
..((((((((-.......))))))))(((((...((--------((....))))((((((((((--(.........))))((((....)))).))))))).))))) ( -37.60)
>DroEre_CAF1 46834 104 + 1
AACUUGGCUA-AGAAGUGUGGCCAGGAUGAGUACGUAUGUAUGUGUGUCCAUGCGUGUGUGUGCUC-UAGUUAAUUAGCGGCGUAAUAAUGCACAUACACACUCCG
..((((((((-.......))))))))..((((..(((((.((....)).)))))((((((((((..-..((((..........))))...)))))))))))))).. ( -33.50)
>DroAna_CAF1 49051 94 + 1
AACUUGGCCAAAGAAGUGCGGUGAUGCUGAACA--A--------AAGCACACACGUUGAUAUGC--UUAGUUAAUUAGAGGCAUAAUAAUGCAGAUACACUCUCGC
............((((((..(((.((((.....--.--------.))))))).(((((.(((((--((..........))))))).)))))......)))).)).. ( -20.20)
>DroPer_CAF1 54903 98 + 1
AACUUGGCCAAAGAAGUGUGGCCAACGCAAAUGCUCAUA------CACGCACGUGUAUGUGCGU--CUAGUUAAUUACAGGCAUAAUAAUGCGGAUACACUCUCCU
...(((((((........)))))))((((...((.((((------(((....))))))).))((--((.((.....)))))).......))))............. ( -32.20)
>consensus
AACUUGGCCA_AGAAGUGUGGCCAAGCUGAAUACGU_________UGCCCACGCGUGUGUGCGC__UUAGUUAAUUAGAGGCAUAAUAAUGCACAUACACACUCCG
..((((((((........))))))))............................((((.((((......(((.......))).......)))).))))........ (-13.70 = -13.87 +   0.17)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,212,630 – 14,212,725
Length 95
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 73.13
Mean single sequence MFE -29.05
Consensus MFE -10.97
Energy contribution -12.44
Covariance contribution 1.47
Combinations/Pair 1.29
Mean z-score -2.40
Structure conservation index 0.38
SVM decision value 1.37
SVM RNA-class probability 0.946982
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14212630 95 - 23771897
CGGAGUGUGUGUGUGCAUUAUUAUGCCGCUAAUUAACUAA--GCGCACACACGCAUAGACAG--------ACAUACUCAGCUUGGCCACACUUCU-UGGCCAAGUU
..((((((((.(((((((....))))..........(((.--(((......))).)))))).--------))))))))((((((((((.......-)))))))))) ( -38.20)
>DroPse_CAF1 46329 98 - 1
AGGAGAGUGUAUCCGCAUUAUUAUGCCUGUAAUUAACUAG--ACGCACAUACACGUGCGUG------UAUGAGCAUUUGCGUUGGCCACACUUCUUUGGCCAAGUU
.(((.......)))((((....))))........((((.(--((((((((((((....)))------))))......))))))(((((........))))).)))) ( -29.30)
>DroSec_CAF1 47773 95 - 1
CCGAGUGUGUGUGUGCAUUAUUACGCCGCUAAUUAACUAA--GCGCACACACGCAUGGGCAU--------ACAUCCUCAGCUUGGCCACACUUCU-UGGCCAAGUU
(((.((((((((((((........................--)))))))))))).)))....--------........((((((((((.......-)))))))))) ( -37.46)
>DroEre_CAF1 46834 104 - 1
CGGAGUGUGUAUGUGCAUUAUUACGCCGCUAAUUAACUA-GAGCACACACACGCAUGGACACACAUACAUACGUACUCAUCCUGGCCACACUUCU-UAGCCAAGUU
.(((((((((.(((((.(((.................))-).))))).))))))(((......))).............)))((((.........-..)))).... ( -21.93)
>DroAna_CAF1 49051 94 - 1
GCGAGAGUGUAUCUGCAUUAUUAUGCCUCUAAUUAACUAA--GCAUAUCAACGUGUGUGCUU--------U--UGUUCAGCAUCACCGCACUUCUUUGGCCAAGUU
((((((((((....((((....))))........(((.((--((((((......))))))))--------.--.)))..........)))).))))..))...... ( -18.10)
>DroPer_CAF1 54903 98 - 1
AGGAGAGUGUAUCCGCAUUAUUAUGCCUGUAAUUAACUAG--ACGCACAUACACGUGCGUG------UAUGAGCAUUUGCGUUGGCCACACUUCUUUGGCCAAGUU
.(((.......)))((((....))))........((((.(--((((((((((((....)))------))))......))))))(((((........))))).)))) ( -29.30)
>consensus
CGGAGAGUGUAUCUGCAUUAUUAUGCCGCUAAUUAACUAA__GCGCACACACGCAUGGGCA_________ACGUACUCAGCUUGGCCACACUUCU_UGGCCAAGUU
......((((((.(((............................))).))))))..........................((((((((........)))))))).. (-10.97 = -12.44 +   1.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:37 2006