Locus 7597

Sequence ID X_DroMel_CAF1
Location 18,934,639 – 18,934,732
Length 93
Max. P 0.960562
window12466 window12467

overview

Window 6

Location 18,934,639 – 18,934,732
Length 93
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 78.82
Mean single sequence MFE -25.85
Consensus MFE -18.75
Energy contribution -18.75
Covariance contribution 0.00
Combinations/Pair 1.10
Mean z-score -2.11
Structure conservation index 0.73
SVM decision value 1.52
SVM RNA-class probability 0.960562
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18934639 93 + 22224390
GCGCAUAUAUUUCGCAGACUUUCGCCA--CCCCCUCCCCGAUUUCAGUUGCUGCUUUUGACAGUUUUGUGUACUGUCAAUUUAAGGCAGCGGUGU-
(((.(.....).))).......((((.--..........(....)....(((((((((((((((.......)))))))....)))))))))))).- ( -25.40)
>DroPse_CAF1 210391 82 + 1
GCGCAUAUAUUUCACCGAGUUGC-------------CUC-GUUCUUGUGGCUGCUUUUGACAGUUUUGUGUACUGUCAAUUUGAGGCAGAAGUGCU
((((.......((((((((....-------------)))-).....))))((((((((((((((.......)))))))....)))))))..)))). ( -26.40)
>DroYak_CAF1 160913 95 + 1
GCGCAUAUAUUUCGCAGACUUUCGCCAAGCCCCAACCCCGAUUUCAGUUGCUGCUUUUGACAGUUUUGUGUACUGUCAAUUUAAGGCAGCAGUGU-
((((.........((........)).......................((((((((((((((((.......)))))))....)))))))))))))- ( -24.20)
>DroPer_CAF1 210772 82 + 1
GCGCAUAUAUUUCACCGAGCUGC-------------CUC-GUUCUUGUGGCUGCUUUUGACAGUUUUGUGUACUGUCAAUUUGAGGCAGAAGUGCU
((((.......((((.((((...-------------...-))))..))))((((((((((((((.......)))))))....)))))))..)))). ( -27.40)
>consensus
GCGCAUAUAUUUCACAGACUUGC_____________CCC_AUUCCAGUGGCUGCUUUUGACAGUUUUGUGUACUGUCAAUUUAAGGCAGAAGUGC_
((((............(.....)..........................(((((((((((((((.......)))))))....)))))))).)))). (-18.75 = -18.75 +   0.00)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 7

Location 18,934,639 – 18,934,732
Length 93
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 78.82
Mean single sequence MFE -25.23
Consensus MFE -13.07
Energy contribution -13.58
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.76
Structure conservation index 0.52
SVM decision value 1.33
SVM RNA-class probability 0.942940
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18934639 93 - 22224390
-ACACCGCUGCCUUAAAUUGACAGUACACAAAACUGUCAAAAGCAGCAACUGAAAUCGGGGAGGGGG--UGGCGAAAGUCUGCGAAAUAUAUGCGC
-.(((((((((.((...((((((((.......)))))))))))))))..(((....)))......))--))((....))..(((.........))) ( -27.70)
>DroPse_CAF1 210391 82 - 1
AGCACUUCUGCCUCAAAUUGACAGUACACAAAACUGUCAAAAGCAGCCACAAGAAC-GAG-------------GCAACUCGGUGAAAUAUAUGCGC
.(((...((((......((((((((.......))))))))..))))...((....(-(((-------------....)))).)).......))).. ( -22.90)
>DroYak_CAF1 160913 95 - 1
-ACACUGCUGCCUUAAAUUGACAGUACACAAAACUGUCAAAAGCAGCAACUGAAAUCGGGGUUGGGGCUUGGCGAAAGUCUGCGAAAUAUAUGCGC
-....((((((.((...((((((((.......)))))))))))))))).(((....))).......((..(((....))).))............. ( -26.40)
>DroPer_CAF1 210772 82 - 1
AGCACUUCUGCCUCAAAUUGACAGUACACAAAACUGUCAAAAGCAGCCACAAGAAC-GAG-------------GCAGCUCGGUGAAAUAUAUGCGC
..((((.(((((((...((((((((.......))))))))..(......)......-)))-------------))))...))))............ ( -23.90)
>consensus
_ACACUGCUGCCUCAAAUUGACAGUACACAAAACUGUCAAAAGCAGCAACAAAAAC_GAG_____________GAAACUCGGCGAAAUAUAUGCGC
......(((((......((((((((.......))))))))..)))))................................................. (-13.07 = -13.58 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:54 2006