Locus 7855

Sequence ID X_DroMel_CAF1
Location 19,567,518 – 19,567,677
Length 159
Max. P 0.878753
window12883 window12884

overview

Window 3

Location 19,567,518 – 19,567,637
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.66
Mean single sequence MFE -46.60
Consensus MFE -35.40
Energy contribution -35.18
Covariance contribution -0.22
Combinations/Pair 1.19
Mean z-score -3.15
Structure conservation index 0.76
SVM decision value 0.38
SVM RNA-class probability 0.714976
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19567518 119 - 22224390
AGCUGUUCUUGUUCAGUUGGAUGGCGAAGUUAGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACCUCGCCGUUGCGGCGUGAGAA-CGUUCCUUGUAUUUCGAGU
....(((((..(...((((((((((((.((...((((.((..(((((((((((.....)))))))))))))))))..)).)))))))).)))))..))))-)....((((.....)))). ( -43.60)
>DroSec_CAF1 31453 119 - 1
AGCUGUUCUUGUUCAGUUGGAUGGCGAAGUUAGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACUUCGCCG-UGCGGCGUGAGAACCGUUCCUUGUAUUUCGAGU
(((.(((((..(...((((.((((((((((...((((.((..(((((((((((.....)))))))))))))))))..)))))))))-).)))))..))))).))).((((.....)))). ( -50.30)
>DroEre_CAF1 31249 119 - 1
AGCUGUUCUUGUUCAGUUGGAUGGCGAAGUUUGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACCUCGCCGUUGCGGCGUGAGAA-CGUUCCUUGUAUUUCGAGU
....(((((..(...((((((((((((.((...((((.((..(((((((((((.....)))))))))))))))))..)).)))))))).)))))..))))-)....((((.....)))). ( -43.60)
>DroWil_CAF1 34898 119 - 1
AACUGUUCUUGUUGAGUUGAAUGGCAAAGUUGGUCAUGGGUUGCAUGGCUUUGUUGGUUAGAGUCAUGUCCAUGAAAAUUUCGCCAUUGCGACGAGAGAA-UGUACCCUGAAUCUCAAGA
.((..(((((((((.....((((((.(((((..((((((...(((((((((((.....))))))))))))))))).))))).)))))).)))))))))..-.))................ ( -41.80)
>DroYak_CAF1 30137 119 - 1
AGCUGUUCUUGUUUAGUUGGAUGGCGAAGUUAGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACCUCGCCGUUGCGGCGUGAAAA-CGUUCCUUGUAUUUCCAGU
.((((..............((((((((.((...((((.((..(((((((((((.....)))))))))))))))))..)).))))))))(..((((....)-)))..).........)))) ( -40.70)
>DroAna_CAF1 37088 119 - 1
AGCUGUUCUUGUUCAGCUGGAUGGCGAAGUUGGUCAUCGGCUGCAUGGCCUUGUUGGUCAGGGUCAUGUCCAUGAACACUUCGCCGUUGCGCCGCGAGAA-GGUGCCCUGGAUCUCCAGG
(((((........))))).(((((((((((...((((.((..(((((((((((.....)))))))))))))))))..)))))))))))(((((.......-)))))(((((....))))) ( -59.60)
>consensus
AGCUGUUCUUGUUCAGUUGGAUGGCGAAGUUAGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACCUCGCCGUUGCGGCGUGAGAA_CGUUCCUUGUAUUUCGAGU
.....((((((....((((((((((((.((...((((.((..(((((((((((.....)))))))))))))))))..)).)))))))).)))).)))))).................... (-35.40 = -35.18 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,567,557 – 19,567,677
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 90.83
Mean single sequence MFE -46.40
Consensus MFE -41.51
Energy contribution -41.32
Covariance contribution -0.19
Combinations/Pair 1.16
Mean z-score -1.63
Structure conservation index 0.89
SVM decision value 0.91
SVM RNA-class probability 0.878753
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19567557 120 - 22224390
AGGGGAGCAGCCUGCAUGGGCGACGCGGGCACCAGGCCGAAGCUGUUCUUGUUCAGUUGGAUGGCGAAGUUAGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACC
.((((((((((..((.(((((.......)).))).))....))))))))((((((....((((((.......))))))((..(((((((((((.....))))))))))))).)))))))) ( -48.50)
>DroSec_CAF1 31492 120 - 1
AGGGGAGCAGCCUGCAUGGGCGACGCGGGCACCAGGCCGAAGCUGUUCUUGUUCAGUUGGAUGGCGAAGUUAGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACU
..(((((((((..((.(((((.......)).))).))....)))))))))(((((....((((((.......))))))((..(((((((((((.....))))))))))))).)))))... ( -48.30)
>DroEre_CAF1 31288 120 - 1
AGGGGAGCAGCCUGCAUGGGCGACGCGGGUACCAGGCCGAAGCUGUUCUUGUUCAGUUGGAUGGCGAAGUUUGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACC
.((((((((((..((.(((...((....)).))).))....))))))))((((((....((((((((...))))))))((..(((((((((((.....))))))))))))).)))))))) ( -47.10)
>DroWil_CAF1 34937 120 - 1
AGAGGAGUAGCCUGCAAUGGCGCCGAUGGCGAUAAGCCGAAACUGUUCUUGUUGAGUUGAAUGGCAAAGUUGGUCAUGGGUUGCAUGGCUUUGUUGGUUAGAGUCAUGUCCAUGAAAAUU
.........(((......)))((((.((((.....))))...(..(((.....)))..)..))))..((((..((((((...(((((((((((.....))))))))))))))))).)))) ( -37.40)
>DroYak_CAF1 30176 120 - 1
AGCGGAGCAGCCUGCAUGGGCGACGCGGGCACCAGGCCGAAGCUGUUCUUGUUUAGUUGGAUGGCGAAGUUAGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACC
...((((((((..((.(((((.......)).))).))....))))))))((((((....((((((.......))))))((..(((((((((((.....))))))))))))).)))))).. ( -45.50)
>DroAna_CAF1 37127 120 - 1
AGUGGAGCAGCCUGCAGCGGCGACGAUGGCACCAGGCCGAAGCUGUUCUUGUUCAGCUGGAUGGCGAAGUUGGUCAUCGGCUGCAUGGCCUUGUUGGUCAGGGUCAUGUCCAUGAACACU
.((((((((((((((..((....))...)))...((((((.(((((((..........)))))))....))))))...))))))(((((((((.....))))))))).)))))....... ( -51.60)
>consensus
AGGGGAGCAGCCUGCAUGGGCGACGCGGGCACCAGGCCGAAGCUGUUCUUGUUCAGUUGGAUGGCGAAGUUAGUCAUCGGCUGCAUGGCUUUGUUGGUCAGAGUCAUGUCCAUGAACACC
((((.(((.(((......)))......(((.....)))...))).))))((((((....((((((.......))))))((..(((((((((((.....))))))))))))).)))))).. (-41.51 = -41.32 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:10 2006