Locus 6637

Sequence ID X_DroMel_CAF1
Location 16,534,589 – 16,534,721
Length 132
Max. P 0.991171
window10839 window10840

overview

Window 9

Location 16,534,589 – 16,534,682
Length 93
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 81.09
Mean single sequence MFE -22.23
Consensus MFE -18.25
Energy contribution -21.62
Covariance contribution 3.38
Combinations/Pair 0.97
Mean z-score -1.51
Structure conservation index 0.82
SVM decision value 0.22
SVM RNA-class probability 0.640313
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16534589 93 + 22224390
UGCUUUAUCGAUGACUCGAGUUCUGGGCUAUAAAAGCCAUGCCAUUGAGGUCAUAAAUACAAUAAAUAAGCA--------------------UGCUUAGUUAGCGAUUAUUAC
((((((((..(((((((((......((((.....))))......)))).)))))..)))........)))))--------------------((((.....))))........ ( -20.40)
>DroSec_CAF1 10228 88 + 1
AACUUUAUCGAUGACACGAAUUCUGGGCUAUAAAAGCCAUGCCAUUGAGCUCAUAAA-----UAACUAAGUA--------------------UGCUUAGUUAGCGAUUAUUAC
......(((((((((.(((......((((.....))))......))).).))))...-----((((((((..--------------------..)))))))).))))...... ( -18.70)
>DroSim_CAF1 11113 88 + 1
AGCUUUAUCGAUGACUCGAGUUCUGGGCUAUAAAAGCCAUGCCAUUGAGCUCAUAAA-----UAACUAAGUG--------------------UGCUUAGUUAGCGAUUAUUAC
......(((((((((((((......((((.....))))......))))).))))...-----((((((((..--------------------..)))))))).))))...... ( -24.70)
>DroEre_CAF1 4041 108 + 1
AGCUUUAUCGACGUCUCGAGUUCUGGGCAAUAAAAGCCAUGCCAUUGAGGUCAUAAA-----UAAAUAAGCAUUCCACACGCAAGACGGCGGUGCUUAGUUAGUGAUUAUUAC
....((((..(((((((((......(((.......)))......)))))).).....-----....((((((((((...(....)..)).))))))))))..))))....... ( -25.10)
>consensus
AGCUUUAUCGAUGACUCGAGUUCUGGGCUAUAAAAGCCAUGCCAUUGAGCUCAUAAA_____UAAAUAAGCA____________________UGCUUAGUUAGCGAUUAUUAC
......(((((((((((((......((((.....))))......))))).))))........((((((((((((((((((....)))))))))))))))))).))))...... (-18.25 = -21.62 +   3.38)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 16,534,628 – 16,534,721
Length 93
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 81.68
Mean single sequence MFE -24.27
Consensus MFE -21.79
Energy contribution -23.47
Covariance contribution 1.69
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 0.90
SVM decision value 2.25
SVM RNA-class probability 0.991171
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16534628 93 + 22224390
UGCCAUUGAGGUCAUAAAUACAAUAAAUAAGCA--------------------UGCUUAGUUAGCGAUUAUUACGUUAACCAC-AAGUCCAGUGGCAAUCACCGAUCCUUAUCC
((((((((.((.(..............((((..--------------------..))))(((((((.......)))))))...-..)))))))))))................. ( -20.10)
>DroSec_CAF1 10267 88 + 1
UGCCAUUGAGCUCAUAAA-----UAACUAAGUA--------------------UGCUUAGUUAGCGAUUAUUACGUUAACCAC-AAGUCCAGUGGCAAUCGCCGAUCCUUAUCC
((((((((..((......-----((((((((..--------------------..))))))))(((.......))).......-.))..))))))))................. ( -22.70)
>DroSim_CAF1 11152 88 + 1
UGCCAUUGAGCUCAUAAA-----UAACUAAGUG--------------------UGCUUAGUUAGCGAUUAUUACGUUAACCAC-AAGUCCAGUGGCAAUCGCCGAUCCUUAUCC
((((((((..((......-----((((((((..--------------------..))))))))(((.......))).......-.))..))))))))................. ( -22.70)
>DroEre_CAF1 4080 107 + 1
UGCCAUUGAGGUCAUAAA-----UAAAUAAGCAUUCCACACGCAAGACGGCGGUGCUUAGUUAGUGAUUAUUACGCUAACCAGU--GUCCAGUGGCAAUCGCCGAUCCUUAUCC
((((((((.((.(((...-----....((((((((((...(....)..)).))))))))(((((((.......)))))))..))--)))))))))))................. ( -31.60)
>consensus
UGCCAUUGAGCUCAUAAA_____UAAAUAAGCA____________________UGCUUAGUUAGCGAUUAUUACGUUAACCAC_AAGUCCAGUGGCAAUCGCCGAUCCUUAUCC
((((((((...................((((((((((((((....))))))))))))))(((((((.......))))))).........))))))))................. (-21.79 = -23.47 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:52 2006