Locus 5053

Sequence ID 2L_DroMel_CAF1
Location 14,483,014 – 14,483,151
Length 137
Max. P 0.855254
window8036 window8037 window8038

overview

Window 6

Location 14,483,014 – 14,483,111
Length 97
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 92.47
Mean single sequence MFE -39.17
Consensus MFE -33.82
Energy contribution -32.50
Covariance contribution -1.32
Combinations/Pair 1.19
Mean z-score -2.21
Structure conservation index 0.86
SVM decision value 0.53
SVM RNA-class probability 0.770499
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14483014 97 + 22407834
GCCAAGGAUUGAGGAGCC-CAAGGGUGGAGGGCACUUGAGUGCAGCUCCAAUUAUGGGGCGAAACUGACGUCAGCUCGCGGCUCGACUCAACUCAUAA
.....(..((((((((((-...((((.((.(((((....)))).((((((....))))))........).)).))))..)))))..)))))..).... ( -37.60)
>DroSec_CAF1 7580 96 + 1
GCCAAGGAUUGAGGAGCC-CGAG-GUGGAGGGCACUUGAGUGCAGCUCCAAUUAUGGGGCGAAACUGACGUCAGCUCGCGGCUCGACUCAACUCAUAA
.....(..((((((((((-((((-.((..(.((((....)))).((((((....))))))........)..)).)))).)))))..)))))..).... ( -41.20)
>DroEre_CAF1 8990 97 + 1
GCCCAGGAUUGUGGAGCCCCAAG-GCGGAGGGCACUUGAGUGCAGCUCCAAUUAUGGGGCGAAGCUGACGUCAGUCCGCGGCUCGACGCGACUCAUAA
((...(..(((((((((((((((-..((((.((((....))))..))))..)).))))))....(((....))))))))))..)...))......... ( -38.70)
>consensus
GCCAAGGAUUGAGGAGCC_CAAG_GUGGAGGGCACUUGAGUGCAGCUCCAAUUAUGGGGCGAAACUGACGUCAGCUCGCGGCUCGACUCAACUCAUAA
.....(..((((((((((.(......((((.((((....))))..)))).......((((...((....))..))))).)))))..)))))..).... (-33.82 = -32.50 +  -1.32)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,483,014 – 14,483,111
Length 97
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 92.47
Mean single sequence MFE -35.93
Consensus MFE -32.89
Energy contribution -32.90
Covariance contribution 0.01
Combinations/Pair 1.11
Mean z-score -2.09
Structure conservation index 0.92
SVM decision value 0.80
SVM RNA-class probability 0.855254
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14483014 97 - 22407834
UUAUGAGUUGAGUCGAGCCGCGAGCUGACGUCAGUUUCGCCCCAUAAUUGGAGCUGCACUCAAGUGCCCUCCACCCUUG-GGCUCCUCAAUCCUUGGC
....(..(((((..(((((((((((((....))).)))))..((....(((((..((((....)))).)))))....))-))))))))))..)..... ( -36.30)
>DroSec_CAF1 7580 96 - 1
UUAUGAGUUGAGUCGAGCCGCGAGCUGACGUCAGUUUCGCCCCAUAAUUGGAGCUGCACUCAAGUGCCCUCCAC-CUCG-GGCUCCUCAAUCCUUGGC
....(..(((((..(((((((((((((....))).)))))........(((((..((((....)))).))))).-....-))))))))))..)..... ( -35.80)
>DroEre_CAF1 8990 97 - 1
UUAUGAGUCGCGUCGAGCCGCGGACUGACGUCAGCUUCGCCCCAUAAUUGGAGCUGCACUCAAGUGCCCUCCGC-CUUGGGGCUCCACAAUCCUGGGC
....((((.((((((..(....)..))))))..)))).((((((....(((((..((((....)))).))))).-..))))))((((......)))). ( -35.70)
>consensus
UUAUGAGUUGAGUCGAGCCGCGAGCUGACGUCAGUUUCGCCCCAUAAUUGGAGCUGCACUCAAGUGCCCUCCAC_CUUG_GGCUCCUCAAUCCUUGGC
....(..(((((..(((((((((((((....))).)))))........(((((..((((....)))).))))).......))))))))))..)..... (-32.89 = -32.90 +   0.01)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,483,051 – 14,483,151
Length 100
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -28.43
Consensus MFE -27.37
Energy contribution -26.93
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.44
Structure conservation index 0.96
SVM decision value -0.05
SVM RNA-class probability 0.507090
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14483051 100 + 22407834
AGUGCAGCUCCAAUUAUGGGGCGAAACUGACGUCAGCUCGCGGCUCGACUCAACUCAUAAUGAAAACAUUUAACCUGUCGUCGUCAGUGAUUCAACAUGA
.(((..((((((....))))))(((((((((((((((.....))).)))............((..(((.......)))..))))))))..)))..))).. ( -27.00)
>DroSec_CAF1 7616 100 + 1
AGUGCAGCUCCAAUUAUGGGGCGAAACUGACGUCAGCUCGCGGCUCGACUCAACUCAUAAUGAAAACAUUUAACCUGUCGUCGUCAGUGAUUCAACAUGA
.(((..((((((....))))))(((((((((((((((.....))).)))............((..(((.......)))..))))))))..)))..))).. ( -27.00)
>DroEre_CAF1 9027 100 + 1
AGUGCAGCUCCAAUUAUGGGGCGAAGCUGACGUCAGUCCGCGGCUCGACGCGACUCAUAAUGAAAACAUUUAACCUGUCGUCGUCAGUGAUUCAACAUGA
.(((..((((((....))))))(((((((((((((((.....))).)))(((((....((((....))))......))))).))))))..)))..))).. ( -31.30)
>consensus
AGUGCAGCUCCAAUUAUGGGGCGAAACUGACGUCAGCUCGCGGCUCGACUCAACUCAUAAUGAAAACAUUUAACCUGUCGUCGUCAGUGAUUCAACAUGA
.(((..((((((....))))))(((((((((((((((.....))).)))............((..(((.......)))..))))))))..)))..))).. (-27.37 = -26.93 +  -0.44)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:42 2006