Locus 4418

Sequence ID 3L_DroMel_CAF1
Location 12,909,266 – 12,909,407
Length 141
Max. P 0.972583
window6846 window6847

overview

Window 6

Location 12,909,266 – 12,909,375
Length 109
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.03
Mean single sequence MFE -29.49
Consensus MFE -26.74
Energy contribution -27.10
Covariance contribution 0.36
Combinations/Pair 1.03
Mean z-score -1.85
Structure conservation index 0.91
SVM decision value 1.70
SVM RNA-class probability 0.972583
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12909266 109 + 23771897
-----------UCGACUUUGUUGUAAUUUUCUAAAGCUAAUAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUGGGCGCUUAUCGCCGACGAAGCAGUUUCCAAAA
-----------..(.((((((((....((((((.(((((.((((.....)))))))))....))))))....((....(((((((....)))))))..)))))))))))........... ( -27.00)
>DroPse_CAF1 39035 116 + 1
CGUCGACG---CAGACUUUGUUGUAAUUUUCUAAAGCUAAUAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUUGGCGCUUAUCGCCGACGAAGCAGUUUCCA-AA
.(((....---..)))..........................((((((((((((.((..(((((....((((((((.....)))))))).)))))...))..))))))))))))...-.. ( -29.90)
>DroSec_CAF1 30036 109 + 1
-----------UCGACUUUGUUGUAAUUUUCUAAAGCUAAUAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUCGGCGCUUAUCGCCGACGAAGCAGUUUCCAAAA
-----------..(.((((((((....((((((.(((((.((((.....)))))))))....))))))....((....(((((((....)))))))..)))))))))))........... ( -30.00)
>DroYak_CAF1 32570 109 + 1
-----------UCGACUUUGUUGUAAUUUUCUAAAGCUAAUAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUGGGCGCUUAUCGCCGACGAAGCAGUUUCCAAAA
-----------..(.((((((((....((((((.(((((.((((.....)))))))))....))))))....((....(((((((....)))))))..)))))))))))........... ( -27.00)
>DroAna_CAF1 56759 119 + 1
UGUCCUGGCAGGCGACUUUGUUGUAAUUUUCUAAAGCUAAUAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUUGGCGCUUAUCGUCGACGAAGCAGUUUCCA-AA
.....(((.((((..((((((((.......(((((((...((((((.(((((((..((.....))..)))))))))))))...)))))))..........))))))))..)))))))-.. ( -33.13)
>DroPer_CAF1 34656 116 + 1
CGUCGACG---CAGACUUUGUUGUAAUUUUCUAAAGCUAAUAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUUGGCGCUUAUCGCCGACGAAGCAGUUUCCA-AA
.(((....---..)))..........................((((((((((((.((..(((((....((((((((.....)))))))).)))))...))..))))))))))))...-.. ( -29.90)
>consensus
___________UCGACUUUGUUGUAAUUUUCUAAAGCUAAUAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUUGGCGCUUAUCGCCGACGAAGCAGUUUCCA_AA
.............(.((((((((....((((((.(((((.((((.....)))))))))....))))))....((....(((((((....)))))))..)))))))))))........... (-26.74 = -27.10 +   0.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,909,295 – 12,909,407
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.32
Mean single sequence MFE -31.02
Consensus MFE -25.54
Energy contribution -25.40
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -1.91
Structure conservation index 0.82
SVM decision value 0.12
SVM RNA-class probability 0.592844
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12909295 112 + 23771897
UAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUGGGCGCUUAUCGCCGACGAAGCAGUUUCCAAAAUUGAACCCAAUGCACUUAGGCACAC--------ACCCAGC
......((((((((..((.....))..)))))))).((((((((((((((.(((..(((....))))))...(((.......)))))))).))))))))).....--------....... ( -28.50)
>DroPse_CAF1 39072 115 + 1
UAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUUGGCGCUUAUCGCCGACGAAGCAGUUUCCA-AAUUGAACUCAAUGCACUUAGGCACAGAAAAG----CACAGU
......((((((((.(((.(((((((((((((((((.....)))))))((((.....)))).........)))))).-.((((....))))..)))).))))))...)))----)).... ( -31.50)
>DroSec_CAF1 30065 112 + 1
UAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUCGGCGCUUAUCGCCGACGAAGCAGUUUCCAAAAUUGAACCCAAUGCACUUAGGCACAC--------ACCCAGC
..((((((((((((.(((...((....))..)))....(((((((....)))))))......))))))))))))................(((......)))...--------....... ( -29.50)
>DroYak_CAF1 32599 112 + 1
UAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUGGGCGCUUAUCGCCGACGAAGCAGUUUCCAAAAUUGAACCCAAUGCACUUAGGCACAC--------ACCCAGC
......((((((((..((.....))..)))))))).((((((((((((((.(((..(((....))))))...(((.......)))))))).))))))))).....--------....... ( -28.50)
>DroAna_CAF1 56799 119 + 1
UAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUUGGCGCUUAUCGUCGACGAAGCAGUUUCCA-AAUUGAACUCAAUGCACUUAGGCAUAGGAAACUCCGGUCGGC
......((((((((..((.....))..))))))))...(((((((....)))))))..((((((...(.(((((((.-...((....))((((......)))).))))))).).)))))) ( -36.60)
>DroPer_CAF1 34693 115 + 1
UAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUUGGCGCUUAUCGCCGACGAAGCAGUUUCCA-AAUUGAACUCAAUGCACUUAGGCACAGAAAAG----CACAGU
......((((((((.(((.(((((((((((((((((.....)))))))((((.....)))).........)))))).-.((((....))))..)))).))))))...)))----)).... ( -31.50)
>consensus
UAAAAUUGCUUUGUAGCUGAAGUGGAAAUAAAGCAUUUUAAGUGCUUUGGCGCUUAUCGCCGACGAAGCAGUUUCCA_AAUUGAACCCAAUGCACUUAGGCACAC________ACCCAGC
..((((((((((((.((..(((((......((((((.....))))))...)))))...))..)))))))))))).....((((....))))((......))................... (-25.54 = -25.40 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:06 2006