Locus 3687

Sequence ID 3L_DroMel_CAF1
Location 10,755,295 – 10,755,439
Length 144
Max. P 0.994746
window5755 window5756

overview

Window 5

Location 10,755,295 – 10,755,399
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.59
Mean single sequence MFE -30.81
Consensus MFE -25.80
Energy contribution -25.32
Covariance contribution -0.48
Combinations/Pair 1.15
Mean z-score -2.48
Structure conservation index 0.84
SVM decision value 2.51
SVM RNA-class probability 0.994746
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10755295 104 + 23771897
UUCCCAGCUUUUAUCCCAUCA--UAGCCUGGGAACCUUUUCGCCU---------UUAGCUUCAGCUCUCGAAUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGAG-----UUCCAUAAAU
(((((((((............--.)).)))))))....(((((..---------..(((....((((.((((((((....)).)))))).))))...))))))))-----.......... ( -33.12)
>DroSec_CAF1 89058 104 + 1
UUCCCACCUUUUAUCCCAUCA--UGGCCUGGGAACCUUUUCGCCU---------UUAGCUUCAGCUCUCGAGUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGGA-----GUCCAUAAAU
((((((((.............--.))..))))))...((((((..---------..(((....((((.((((((((....)).)))))).))))...))))))))-----)......... ( -30.84)
>DroSim_CAF1 91591 104 + 1
UUCCCACCUUUUAUCCCAUCA--UAGCCUGGGAACCUUUUCGCCU---------UUAGCUUCAGCUCUCGAGUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGGA-----GUCCAUAAAU
.............(((((...--.....)))))....((((((..---------..(((....((((.((((((((....)).)))))).))))...))))))))-----)......... ( -30.10)
>DroEre_CAF1 93744 104 + 1
UUCCCACCUUUUAUGCCAUCA--UAGCCUGGGAACCUUUUCGCCU---------UUAGCUGUAUCUCUCCAGUGCCUCAAGGUCAUUGGCGAGCGUUGCUGCGAG-----GUCUAUAAAU
((((((....(((((....))--)))..)))))).......((((---------(((((.....(((.((((((((....)).)))))).)))....)))).)))-----))........ ( -30.70)
>DroYak_CAF1 104579 120 + 1
UUCCCACCUUUUAUCCCAUCAUAUAGCCUGGGAACCUUUUCGCCUUUUCGCCUUUUAGCUUUAGCUCUCCAGUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGAGCGUUGGUCUAUAAAU
((((((..((.(((......))).))..)))))).......(((....(((.((.((((....((((.(.((((((....)).)))).).))))...)))).)))))..)))........ ( -29.30)
>consensus
UUCCCACCUUUUAUCCCAUCA__UAGCCUGGGAACCUUUUCGCCU_________UUAGCUUCAGCUCUCGAGUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGAG_____GUCCAUAAAU
((((((......................))))))....(((((.............(((....((((.((((((((....)).)))))).))))...))))))))............... (-25.80 = -25.32 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,755,333 – 10,755,439
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.07
Mean single sequence MFE -31.63
Consensus MFE -25.69
Energy contribution -25.69
Covariance contribution -0.00
Combinations/Pair 1.07
Mean z-score -1.89
Structure conservation index 0.81
SVM decision value 1.11
SVM RNA-class probability 0.916719
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10755333 106 + 23771897
CGCCU---------UUAGCUUCAGCUCUCGAAUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGAG-----UUCCAUAAAUAUGCAUGUCUGAUAUGUCGGCAUAUUACAAUACUUAUCGC
.....---------..(((....((((.((((((((....)).)))))).))))...)))((((.-----.......(((((((.((.(......).)))))))))..........)))) ( -29.37)
>DroSec_CAF1 89096 106 + 1
CGCCU---------UUAGCUUCAGCUCUCGAGUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGGA-----GUCCAUAAAUAUGCAUGUCUGAUAUGUCGGCAUAUUACAAUACUUAUCGC
(((..---------..(((....((((.((((((((....)).)))))).))))...))))))((-----((.....(((((((.((.(......).))))))))).....))))..... ( -30.50)
>DroSim_CAF1 91629 106 + 1
CGCCU---------UUAGCUUCAGCUCUCGAGUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGGA-----GUCCAUAAAUAUGCAUGUCUAAUAUGUCGGCAUAUUACAAUACUUAUCGC
(((..---------..(((....((((.((((((((....)).)))))).))))...))))))((-----((.....(((((((.((.(......).))))))))).....))))..... ( -30.50)
>DroEre_CAF1 93782 106 + 1
CGCCU---------UUAGCUGUAUCUCUCCAGUGCCUCAAGGUCAUUGGCGAGCGUUGCUGCGAG-----GUCUAUAAAUAUGCAUGUCUGAUAUGGCGGCAUAUUACAAUACUUAUCUC
.((((---------(((((.....(((.((((((((....)).)))))).)))....)))).)))-----)).....(((((((.((((......))))))))))).............. ( -33.80)
>DroYak_CAF1 104619 120 + 1
CGCCUUUUCGCCUUUUAGCUUUAGCUCUCCAGUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGAGCGUUGGUCUAUAAAUAUGCAUGUCUGAUAUGGCGGCAUAUUACAAUACUUAUCUC
.(((....(((.((.((((....((((.(.((((((....)).)))).).))))...)))).)))))..))).....(((((((.((((......))))))))))).............. ( -34.00)
>consensus
CGCCU_________UUAGCUUCAGCUCUCGAGUGCCUCAAGGUCAUUUGCGAGCGUUGCUGCGAG_____GUCCAUAAAUAUGCAUGUCUGAUAUGUCGGCAUAUUACAAUACUUAUCGC
(((.............(((....((((.((((((((....)).)))))).))))...))))))..............(((((((.((.(......).))))))))).............. (-25.69 = -25.69 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:15 2006