Locus 4637

Sequence ID 2R_DroMel_CAF1
Location 15,164,865 – 15,164,982
Length 117
Max. P 0.753095
window7453 window7454

overview

Window 3

Location 15,164,865 – 15,164,982
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 91.37
Mean single sequence MFE -27.62
Consensus MFE -20.57
Energy contribution -21.37
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.01
Structure conservation index 0.74
SVM decision value 0.48
SVM RNA-class probability 0.753095
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15164865 117 + 20766785
UUGGUAAAUCGCAUUUUCAAGUGGAUGAAAAUGAGUGAAAUUGACUGUAAAGUGCGAAAGCACCAGAUGUUCAUUUGCGAGAUGUAAAUUUCACGCUUUUCUGAAUGAGCAAUGAAA
(((((...(((((((((..(((.(((.............))).)))..)))))))))....))))).((((((((((((.((........)).)))......)))))))))...... ( -29.82)
>DroSec_CAF1 3273 105 + 1
UUGGUAAAUCGCAUUUUCAAGUGGAUGAAAAUGAGUGAAAUUGACUGUAAAGUGCGAAAGAACCAGAUGUUCAUUUU------------UUCACACUUUUCUGAAUGAGCAAUGAAA
(((((...(((((((((..(((.(((.............))).)))..)))))))))....))))).(((((((((.------------.............)))))))))...... ( -25.36)
>DroSim_CAF1 3272 117 + 1
UUGGUAAAUCGCAUUUUCAAGUGGAUGAAAAUGAGUGAAAUUGACUGUAAAGUGCGAAAGCACCAGAUGUUCAUUUUCGAGAUGUAAAUUUCACACUUUUCUGAAUGAGCAAUGAAA
(((((...(((((((((..(((.(((.............))).)))..)))))))))....))))).(((((((((..(((((((.......))).))))..)))))))))...... ( -28.72)
>DroEre_CAF1 3693 117 + 1
UUGGUAAAUCGCAUUUUCAAGUGGAUGAAAAUGAGUGAAAUGGACUGUAAAGUGCGAAAGCACCAGAUGUUCAUUUUCCAGAUGUAAAUUUUACACUCUUCUGAACGAGCAAGGAAA
((((((((...((((((((......)))))))).(..((((((((......((((....)))).....))))))))..)..........))))).(((........))))))..... ( -28.40)
>DroYak_CAF1 3217 117 + 1
UUGGUAAAUCGCAUUUUCAAGUGGAUAAAAAUGAGUGAAAUGGACUGUAAAGUGCGAAAGCAGCAGAUGUUCAUUUGCGAGAUGUAAAUUUCACACUAUUCUGAAUGAGCAACGAAA
..........((...(((((((((((....))..(((((((..((.......(((....)))((((((....)))))).....))..))))))).))))).))))...))....... ( -25.80)
>consensus
UUGGUAAAUCGCAUUUUCAAGUGGAUGAAAAUGAGUGAAAUUGACUGUAAAGUGCGAAAGCACCAGAUGUUCAUUUUCGAGAUGUAAAUUUCACACUUUUCUGAAUGAGCAAUGAAA
(((((...(((((((((..(((.(((.............))).)))..)))))))))....))))).(((((((((..........................)))))))))...... (-20.57 = -21.37 +   0.80)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,164,865 – 15,164,982
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 91.37
Mean single sequence MFE -22.30
Consensus MFE -15.94
Energy contribution -17.02
Covariance contribution 1.08
Combinations/Pair 1.07
Mean z-score -2.33
Structure conservation index 0.71
SVM decision value 0.38
SVM RNA-class probability 0.713462
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15164865 117 - 20766785
UUUCAUUGCUCAUUCAGAAAAGCGUGAAAUUUACAUCUCGCAAAUGAACAUCUGGUGCUUUCGCACUUUACAGUCAAUUUCACUCAUUUUCAUCCACUUGAAAAUGCGAUUUACCAA
....(((((.......((((.(((.((........)).)))...(((......(((((....)))))......))).))))....(((((((......))))))))))))....... ( -23.80)
>DroSec_CAF1 3273 105 - 1
UUUCAUUGCUCAUUCAGAAAAGUGUGAA------------AAAAUGAACAUCUGGUUCUUUCGCACUUUACAGUCAAUUUCACUCAUUUUCAUCCACUUGAAAAUGCGAUUUACCAA
....(((((.......(.((((((((((------------(....((((.....))))))))))))))).)..............(((((((......))))))))))))....... ( -22.50)
>DroSim_CAF1 3272 117 - 1
UUUCAUUGCUCAUUCAGAAAAGUGUGAAAUUUACAUCUCGAAAAUGAACAUCUGGUGCUUUCGCACUUUACAGUCAAUUUCACUCAUUUUCAUCCACUUGAAAAUGCGAUUUACCAA
....(((((............(.((((((((.((.((........))......(((((....))))).....)).)))))))).)(((((((......))))))))))))....... ( -23.50)
>DroEre_CAF1 3693 117 - 1
UUUCCUUGCUCGUUCAGAAGAGUGUAAAAUUUACAUCUGGAAAAUGAACAUCUGGUGCUUUCGCACUUUACAGUCCAUUUCACUCAUUUUCAUCCACUUGAAAAUGCGAUUUACCAA
.......((((........))))..............(((.(((((.((....(((((....))))).....)).)))))..(.((((((((......)))))))).).....))). ( -23.20)
>DroYak_CAF1 3217 117 - 1
UUUCGUUGCUCAUUCAGAAUAGUGUGAAAUUUACAUCUCGCAAAUGAACAUCUGCUGCUUUCGCACUUUACAGUCCAUUUCACUCAUUUUUAUCCACUUGAAAAUGCGAUUUACCAA
....(((((............(.(((((((..((.....(((.((....)).)))(((....))).......))..))))))).)(((((((......))))))))))))....... ( -18.50)
>consensus
UUUCAUUGCUCAUUCAGAAAAGUGUGAAAUUUACAUCUCGAAAAUGAACAUCUGGUGCUUUCGCACUUUACAGUCAAUUUCACUCAUUUUCAUCCACUUGAAAAUGCGAUUUACCAA
.....................(.(((((...........((((.(((......(((((....)))))......))).)))).(.((((((((......)))))))).).)))))).. (-15.94 = -17.02 +   1.08)

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 11:25:22 2006