Locus 4121

Sequence ID 2L_DroMel_CAF1
Location 11,829,775 – 11,829,888
Length 113
Max. P 0.819059
window6506 window6507

overview

Window 6

Location 11,829,775 – 11,829,869
Length 94
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 90.20
Mean single sequence MFE -21.30
Consensus MFE -19.32
Energy contribution -19.10
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.95
Structure conservation index 0.91
SVM decision value 0.67
SVM RNA-class probability 0.819059
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11829775 94 + 22407834
UAUCUUCCAGUUCUCACUCCUUCAAGUGCUUACUACGUAUGAAUGUAAGUUUGAUUUAAUAGUUGCACGGAGUAUUUAAACGUAGUAAGCAAUU--------
..........................((((((((((((.((((((...((.(((((....))))).))....)))))).))))))))))))...-------- ( -22.70)
>DroSec_CAF1 52996 102 + 1
UAUCUUCCAGUUUUCACUCCUUCAAAAGCUUACUACGUACGAAUGUAAGUAUGAUUUAAUAGUUUCAUGGAGUAUUUAAACGUAGUAAGCAAUUUCUUGAAC
...........................(((((((((((..(((((....(((((..........)))))...)))))..)))))))))))............ ( -20.60)
>DroSim_CAF1 18550 102 + 1
UAUCUUCCAGUUCUCACUCCUUCAAAAGCUUACUACGUACGAAUGUAAGUAUGAUUUAAUAGUUUCAUGGAGUAUUUAAACGUAGUAAGCAAUUUCUUGAAC
...........................(((((((((((..(((((....(((((..........)))))...)))))..)))))))))))............ ( -20.60)
>consensus
UAUCUUCCAGUUCUCACUCCUUCAAAAGCUUACUACGUACGAAUGUAAGUAUGAUUUAAUAGUUUCAUGGAGUAUUUAAACGUAGUAAGCAAUUUCUUGAAC
...........................(((((((((((..(((((...((..((((....))))..))....)))))..)))))))))))............ (-19.32 = -19.10 +  -0.22)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 7

Location 11,829,797 – 11,829,888
Length 91
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 87.06
Mean single sequence MFE -22.77
Consensus MFE -19.55
Energy contribution -19.67
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -1.99
Structure conservation index 0.86
SVM decision value 0.58
SVM RNA-class probability 0.787846
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11829797 91 + 22407834
CAAGUGCUUACUACGUAUGAAUGUAAGUUUGAUUUAAUAGUUGCACGGAGUAUUUAAACGUAGUAAGCAAUU------------UUUUGUCCAAACGCGGCAA
....((((((((((((.((((((...((.(((((....))))).))....)))))).))))))))))))...------------..((((((....).))))) ( -24.80)
>DroSec_CAF1 53018 103 + 1
CAAAAGCUUACUACGUACGAAUGUAAGUAUGAUUUAAUAGUUUCAUGGAGUAUUUAAACGUAGUAAGCAAUUUCUUGAACAUUUUUUUGUCCAAACGCGGCAA
.....(((((((((((..(((((....(((((..........)))))...)))))..)))))))))))......(((.(((......))).)))......... ( -22.90)
>DroSim_CAF1 18572 103 + 1
CAAAAGCUUACUACGUACGAAUGUAAGUAUGAUUUAAUAGUUUCAUGGAGUAUUUAAACGUAGUAAGCAAUUUCUUGAACAUUUUUUUUUCCAUACGCGGCAA
.....(((((((((((..(((((....(((((..........)))))...)))))..)))))))))))................................... ( -20.60)
>consensus
CAAAAGCUUACUACGUACGAAUGUAAGUAUGAUUUAAUAGUUUCAUGGAGUAUUUAAACGUAGUAAGCAAUUUCUUGAACAUUUUUUUGUCCAAACGCGGCAA
.....(((((((((((..(((((...((..((((....))))..))....)))))..)))))))))))..................((((((....).))))) (-19.55 = -19.67 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:07 2006