Locus 2563

Sequence ID 3L_DroMel_CAF1
Location 7,173,283 – 7,173,413
Length 130
Max. P 0.999351
window3974 window3975

overview

Window 4

Location 7,173,283 – 7,173,377
Length 94
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 90.75
Mean single sequence MFE -27.98
Consensus MFE -25.28
Energy contribution -25.68
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.39
Structure conservation index 0.90
SVM decision value 3.53
SVM RNA-class probability 0.999351
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7173283 94 + 23771897
CCAGCGAGUGGCAUUGUCAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGGUGUAUGCAGUCCUGGCAAAAAAAAAAAA-GAAAA
((((.((.((((((((((..........))))))))))...(((((.(((((....).)))).)))))..)))))).............-..... ( -28.80)
>DroSec_CAF1 36249 90 + 1
CCAGCGAGUGGCAUUGUCAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGUUGUAUGCAGUCCUGGCAAAAAAAG-----AGAAA
...((.((((((((((((..........))))))))))........(((((((.((......)).))))))))).))........-----..... ( -26.10)
>DroSim_CAF1 36596 95 + 1
CCAGCGAGUGGCAUUGUCAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGUUGUAUGCAGUCCUGGCAAAAAAAAAAAAAAUAAA
...((.((((((((((((..........))))))))))........(((((((.((......)).))))))))).)).................. ( -26.10)
>DroEre_CAF1 40592 93 + 1
CUGGCGAGUGGCAUUGUCAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGGUGUAUGCAGACCUGGCUAAAAACAAAA--CAGAA
(((.....((((((((((..........))))))))))..(((.(((((((((.(((....))).))))).)))))))..........--))).. ( -29.50)
>DroYak_CAF1 38888 93 + 1
CUGGCGAGUGGCAUUGUCAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGGUGUAUGCAAACCUGGCUAAAACAAAAA--CAAAA
.((((.((((((((((((..........))))))))))...(((((.(((((....).)))).)))))....)).)))).........--..... ( -29.40)
>consensus
CCAGCGAGUGGCAUUGUCAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGGUGUAUGCAGUCCUGGCAAAAAAAAAAA__AAAAA
...((.((((((((((((..........))))))))))...(((((.(((((....).)))).)))))....)).)).................. (-25.28 = -25.68 +   0.40)

alignment

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secondary structure

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dotplot

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Window 5

Location 7,173,300 – 7,173,413
Length 113
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 91.78
Mean single sequence MFE -32.16
Consensus MFE -26.67
Energy contribution -26.87
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.83
SVM decision value 2.65
SVM RNA-class probability 0.996048
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7173300 113 + 23771897
CAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGGUGUAUGCAGUCCUGGCAAAAAAAAAAAA-GAAAAGAAAACACUGCCGCAGGGCCUAUGCAAGGGCAAAAA
........((.(((..((((((..(((((.(((((....).)))).)))))....))))))...........-....((......))))).))..((((......))))..... ( -30.80)
>DroSec_CAF1 36266 109 + 1
CAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGUUGUAUGCAGUCCUGGCAAAAAAAG-----AGAAAGAAAACACUGCCGCAGGGCCUAUGCAAGGGCAAAAA
........((.(((.((((.....))))..))).))..((((.(((((((..(((((((((.......-----.............))))..))))).))))))).)))).... ( -32.35)
>DroSim_CAF1 36613 114 + 1
CAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGUUGUAUGCAGUCCUGGCAAAAAAAAAAAAAAUAAAGAAAACACUGCCGCAGGGCCUAUGCAAGGGCAAAAA
........((.(((.((((.....))))..))).))..((((.(((((((..(((((((((.........................))))..))))).))))))).)))).... ( -32.11)
>DroEre_CAF1 40609 112 + 1
CAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGGUGUAUGCAGACCUGGCUAAAAACAAAA--CAGAAAAAAACUCUGCCGCAGGCCCUAUGCAAGGGCAAAAA
..(((((.((((((..((.((((((((((.(((((....).)))).)))))....(((.............--))).......))))).))...)))))))))))......... ( -35.12)
>DroYak_CAF1 38905 112 + 1
CAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGGUGUAUGCAAACCUGGCUAAAACAAAAA--CAAAAAAAACCACUGCCGCAGGGCCUAUGCAAGGGCAAAAA
.(((((......)))))(((....(((((((((......(((((.((......)))))))...........--............(((...))))))))))))...)))..... ( -30.40)
>consensus
CAUUGUAAUGGGGCAAUGUCAGAGGCGUAGGCUGCAAAUGCCGGUGUAUGCAGUCCUGGCAAAAAAAAAAA__AAAAAGAAAACACUGCCGCAGGGCCUAUGCAAGGGCAAAAA
.(((((......)))))(((....((((((((((((.((......)).))))..((((((...........................)))..)))))))))))...)))..... (-26.67 = -26.87 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:43 2006