Locus 964

Sequence ID 3L_DroMel_CAF1
Location 2,864,315 – 2,864,408
Length 93
Max. P 0.827275
window1482 window1483

overview

Window 2

Location 2,864,315 – 2,864,408
Length 93
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 82.36
Mean single sequence MFE -25.47
Consensus MFE -16.95
Energy contribution -16.37
Covariance contribution -0.58
Combinations/Pair 1.25
Mean z-score -2.19
Structure conservation index 0.67
SVM decision value 0.44
SVM RNA-class probability 0.736807
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2864315 93 + 23771897
GCUUUUGCGUGUCCUUUGUGAGGACAGCAAAGGACAUUCACACUGCAAGCAGCCACAAUAAAAAGACGUGCGGCAAAGGAAACCAGAAAUGUA
.(((((((.(((((((...))))))))))))))(((((....(((......(((.((...........)).)))...(....)))).))))). ( -25.60)
>DroPse_CAF1 130291 81 + 1
CUCCCUGCGUGUCCUUUGUGCGGACAGCAAAGGACAUUCGCAUUGCAUGCAGCCGCAAUACAAAG------------GAAUACCAGAAAUGUA
....(((.(((((((((((((((.((((((.((.....).).)))).))...))))...))))))------------).)))))))....... ( -25.30)
>DroEre_CAF1 112799 93 + 1
GCUUUUGCGUGUCCUUUGUGAGGACAGCAAAGGACAUUCACACUGCAAGCAGCCACAAUAAAAAGACGUGCGGCAAGGCAAACCAGAAAUGUA
.(((((((.(((((((...))))))))))))))(((((....(((...((.(((.((...........)).)))...))....))).))))). ( -25.90)
>DroYak_CAF1 114557 93 + 1
GCUUUUGCGUGUCCUUUGUGAGGACAGCAAAGGACAUUCACACUGCAAGCAGCUACAAUAAAAAGACGUGCGGCAAAGGAAACCAGAAAUGUA
.((((((((((((((((((.......))))))))))).....(((....)))....................)))))))....((....)).. ( -25.50)
>DroAna_CAF1 98559 93 + 1
CUUCUUGCGUGUCCUUUGCGAGGACAGCAAAGGACAUUCACAUCGCAUGUAGCCACAAUACAAAGGAAAGCGGCAAAGGAAACCAGAAAUGUA
.((((((((((((((((((.......)))))))))))......(((......((..........))...))))).)))))...((....)).. ( -25.20)
>DroPer_CAF1 131264 81 + 1
CUCCCUGCGUGUCCUUUGUGCGGACAGCAAAGGACAUUCGCAUUGCAUGCAGCCGCAAUACAAAG------------GAAUACCAGAAAUGUA
....(((.(((((((((((((((.((((((.((.....).).)))).))...))))...))))))------------).)))))))....... ( -25.30)
>consensus
CCUCUUGCGUGUCCUUUGUGAGGACAGCAAAGGACAUUCACACUGCAAGCAGCCACAAUAAAAAGACGUGCGGCAAAGGAAACCAGAAAUGUA
.....((.(((((((((((.......))))))))))).))..(((....)))......................................... (-16.95 = -16.37 +  -0.58)

alignment

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secondary structure

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dotplot

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Window 3

Location 2,864,315 – 2,864,408
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 82.36
Mean single sequence MFE -27.57
Consensus MFE -19.43
Energy contribution -19.02
Covariance contribution -0.42
Combinations/Pair 1.17
Mean z-score -2.40
Structure conservation index 0.70
SVM decision value 0.70
SVM RNA-class probability 0.827275
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2864315 93 - 23771897
UACAUUUCUGGUUUCCUUUGCCGCACGUCUUUUUAUUGUGGCUGCUUGCAGUGUGAAUGUCCUUUGCUGUCCUCACAAAGGACACGCAAAAGC
...................((((((...........)))))).((((....((((..(((((((((.((....))))))))))))))).)))) ( -26.50)
>DroPse_CAF1 130291 81 - 1
UACAUUUCUGGUAUUC------------CUUUGUAUUGCGGCUGCAUGCAAUGCGAAUGUCCUUUGCUGUCCGCACAAAGGACACGCAGGGAG
....(..(((((....------------.(((((((((((......))))))))))).((((((((.((....)))))))))))).)))..). ( -30.30)
>DroEre_CAF1 112799 93 - 1
UACAUUUCUGGUUUGCCUUGCCGCACGUCUUUUUAUUGUGGCUGCUUGCAGUGUGAAUGUCCUUUGCUGUCCUCACAAAGGACACGCAAAAGC
.........((....))..((((((...........)))))).((((....((((..(((((((((.((....))))))))))))))).)))) ( -27.60)
>DroYak_CAF1 114557 93 - 1
UACAUUUCUGGUUUCCUUUGCCGCACGUCUUUUUAUUGUAGCUGCUUGCAGUGUGAAUGUCCUUUGCUGUCCUCACAAAGGACACGCAAAAGC
.........(((.......)))(((((.........))).)).((((....((((..(((((((((.((....))))))))))))))).)))) ( -22.90)
>DroAna_CAF1 98559 93 - 1
UACAUUUCUGGUUUCCUUUGCCGCUUUCCUUUGUAUUGUGGCUACAUGCGAUGUGAAUGUCCUUUGCUGUCCUCGCAAAGGACACGCAAGAAG
.....(((((((.......)))((.....((..(((((((......)))))))..))((((((((((.......)))))))))).)).)))). ( -27.80)
>DroPer_CAF1 131264 81 - 1
UACAUUUCUGGUAUUC------------CUUUGUAUUGCGGCUGCAUGCAAUGCGAAUGUCCUUUGCUGUCCGCACAAAGGACACGCAGGGAG
....(..(((((....------------.(((((((((((......))))))))))).((((((((.((....)))))))))))).)))..). ( -30.30)
>consensus
UACAUUUCUGGUUUCCUUUGCCGCACGUCUUUGUAUUGUGGCUGCAUGCAAUGUGAAUGUCCUUUGCUGUCCUCACAAAGGACACGCAAAAAC
...................................(((((((.....))........(((((((((.((....)))))))))))))))).... (-19.43 = -19.02 +  -0.42)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:31 2006