Locus 364

Sequence ID 2L_DroMel_CAF1
Location 1,153,340 – 1,153,482
Length 142
Max. P 0.721787
window572 window573

overview

Window 2

Location 1,153,340 – 1,153,442
Length 102
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 88.04
Mean single sequence MFE -35.03
Consensus MFE -28.46
Energy contribution -28.35
Covariance contribution -0.11
Combinations/Pair 1.17
Mean z-score -1.95
Structure conservation index 0.81
SVM decision value 0.12
SVM RNA-class probability 0.591154
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1153340 102 - 22407834
CGCCAAAAUUGGCGGCGAUGUGGCGCAGCAUGCGGAGCUCGUGAAGAGCGCCUUUGGGUGAGUCAGUCUGGAUGAGUCAUCUAUGGUAAAAGUGUAAUAAUG
(((((....)))))(((......))).((((.....((((.....))))(((..(((((((.(((.......))).))))))).)))....))))....... ( -34.30)
>DroSec_CAF1 46879 101 - 1
CGCCAAAAUUGGCGGAGAUGUGGCGCAGCAUGCGGAGCUCGUCAGGAGCGCCUUUGGGUGAGUCAGUCUGGAUGAGUCAUCUAUGGGUAAAGUGUAAU-AUG
(((((....)))))...((((.((((..........((((.....))))((((.(((((((.(((.......))).))))))).))))...)))).))-)). ( -36.40)
>DroSim_CAF1 41926 102 - 1
CGUCAAAAUUGGCGGCGAUGUGGCGCAGCAUGCGGAGCUCGUGAGGAGCGCCUUUGGGUGAGUCAUUUUGGAUGAGUCAUCUAUGGGUAAAGUGUAAUAAUG
(((((....)))))(((......))).((((.....((((.....))))((((.(((((((.(((((...))))).))))))).))))...))))....... ( -34.40)
>DroEre_CAF1 40586 102 - 1
CGCCAAAAUUGGCGGCGAUGUGGCGCAGCAUGCGGAGCUUGUAAAGAGCGCCUUUGGGUGAGUCAGCCUGAAUGAGUCAUCUAUGGGAGAAGUGGAAUAAUG
(((((....)))))((((.((..(((.....)))..)))))).....((.(((.(((((((.(((.......))).))))))).)))....))......... ( -31.30)
>DroYak_CAF1 41676 102 - 1
CGCCAAAAUUGGCGGCGAUGUGGCGCAGCAUGCGGAGCUCGUAAAGAGCGCCUUUGGGUGAGUCAGUCUGGAUGAGUCAUCCGUGCGAAAAGUGAAAUAAUG
(((((....)))))(((......))).((((..((.((((.....)))).))...((((((.(((.......))).))))))))))................ ( -37.20)
>DroAna_CAF1 46301 98 - 1
CGCCAAAAUUGGCGGCGAUGUGGCCCAGCAUGCCGAGCUCGUGAAGAGCGCCUUCGGGUGAGUCAUCCGGCAUGAGUAAUCCAU---UAAAGUAUCC-ACUU
(((((....)))))((...((((.....(((((((.((((.....))))(((....)))........)))))))......))))---....))....-.... ( -36.60)
>consensus
CGCCAAAAUUGGCGGCGAUGUGGCGCAGCAUGCGGAGCUCGUGAAGAGCGCCUUUGGGUGAGUCAGUCUGGAUGAGUCAUCUAUGGGAAAAGUGUAAUAAUG
(((((....))))).......(((((.....))...((((.....)))))))..(((((((.(((.......))).)))))))................... (-28.46 = -28.35 +  -0.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 3

Location 1,153,368 – 1,153,482
Length 114
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 78.60
Mean single sequence MFE -40.02
Consensus MFE -22.69
Energy contribution -23.83
Covariance contribution 1.14
Combinations/Pair 1.13
Mean z-score -1.85
Structure conservation index 0.57
SVM decision value 0.40
SVM RNA-class probability 0.721787
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1153368 114 + 22407834
-CAU-CCAGACUGACUCACCCAAAGGCGCUCUUCACGAGCUCCGCAUGCUGCGCCACAUCGCCGCCAAUUUUGGCGGAGAGAGUUAGGUAUUGGCUCAGCGGACCCGCCACAAUGU
-...-((((.(((((((.......(((((((.....))))...((.....)))))...((.((((((....)))))).)))))))))...))))....(((....)))........ ( -41.80)
>DroVir_CAF1 53071 115 + 1
GCAG-CAGUUUGUGCUUACUCAAAGGCUGCCUUGACGAACUGGGCAUGCUGGGCCACAUCGCCGCCAAUUUUGGCCGAUAGCGCCAGAUACUGGCUCAGCGGCCCGGCCAUAAUAU
((((-(..((((........)))).))))).........((((((.((((((((......)))((((..(((((((....).))))))...)))).)))))))))))......... ( -46.50)
>DroGri_CAF1 45014 115 + 1
GCAU-UAAAAGCCACUCACUCAAAGGCAGCCUUGACAAAUUGCGCAUGCUGGGCCACAUCGCCGCCAAUUUUGGCCGAUAACGCCAGAUAUUGGCUCAGCGGCCCGGCCACAAUAU
((..-.....(((...........))).((..(.....)..))))..((((((((.....((.((((((((((((.......)))))).))))))...))))))))))........ ( -37.40)
>DroEre_CAF1 40614 114 + 1
-CAU-UCAGGCUGACUCACCCAAAGGCGCUCUUUACAAGCUCCGCAUGCUGCGCCACAUCGCCGCCAAUUUUGGCGGAGAGGGCUAGGUAUUGGCUCAGCGGACCCGCCACAAUGU
-...-....(((((..((......((.(((.......))).))..(((((..(((...((.((((((....)))))).)).)))..)))))))..)))))((.....))....... ( -37.10)
>DroWil_CAF1 79095 115 + 1
-CUUUUCACUCUUACUUACUCAAAGGCCGCCUUUACCGACUGAGCAUGCUGGGCAACAUCGCCGCCAAUUUUCACGGAAUUGGCUAGAUAUUGGCUCAGCGGUCCCGCGACAAUAU
-..........................(((....((((.((((((...((((((......)))((((((((.....)))))))))))......))))))))))...)))....... ( -34.60)
>DroAna_CAF1 46325 114 + 1
-CAU-GCCGGAUGACUCACCCGAAGGCGCUCUUCACGAGCUCGGCAUGCUGGGCCACAUCGCCGCCAAUUUUGGCGGAUAGCGACAGAUACUGGCUCAGUGGACCCGCCACAAUAU
-(((-(((((........((....)).((((.....)))))))))))).(((((((.(((.((((((....)))))).........)))..)))))))((((.....))))..... ( -42.70)
>consensus
_CAU_UCAGACUGACUCACCCAAAGGCGCCCUUCACGAACUCCGCAUGCUGGGCCACAUCGCCGCCAAUUUUGGCGGAUAGCGCCAGAUAUUGGCUCAGCGGACCCGCCACAAUAU
........................((((..................((((((((((.(((.((((((....)))))).........)))..))))))))))....))))....... (-22.69 = -23.83 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:59 2006