Locus 4241

Sequence ID 2L_DroMel_CAF1
Location 12,117,414 – 12,117,597
Length 183
Max. P 0.925209
window6696 window6697

overview

Window 6

Location 12,117,414 – 12,117,533
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.31
Mean single sequence MFE -27.22
Consensus MFE -25.06
Energy contribution -23.70
Covariance contribution -1.36
Combinations/Pair 1.21
Mean z-score -1.14
Structure conservation index 0.92
SVM decision value 0.15
SVM RNA-class probability 0.607387
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12117414 119 - 22407834
CCUCAUAUAUGGACCA-GCAACACCCUUUUAUAGGGGUAGGUAUAUCUAAUUUCCAUAAGUCUGCUUAUUUUCCGUGUAUUUCGCUGAUGUUAUUCGGAUAGUGGCGACACAAAAGAAAG
.....((((((((..(-(((((((((((....)))))).((............))....)).)))).....))))))))((((.((((......))))...(((....)))....)))). ( -28.40)
>DroSec_CAF1 19546 120 - 1
CCUCAUAUAUGGACUAUAUAACACCCUUAUAUAGGGGUAGGUAUAUCUAAUUUCCAUAAGUCUGCUUAUUUUCUGUGUAUUUUGCUGAUUUUAUUCAGAUAGUGGCGACACAAAAGAAAG
.......((((((((((((((.....))))))))(((((....)))))....)))))).(((((..((...((.(((.....))).))...))..))))).(((....)))......... ( -25.50)
>DroSim_CAF1 19433 120 - 1
CCUCAUAUAUGGACUAUAUAACACCCUUAUAUAGGGGUAGGUAUAUCUAAUUUCCAUAAGUAUGCUUAUUUUCUGUGUAUUUUGCUGAUUUUAUUCAGAUAGUGGCGACACAAAAGAAAG
....(((((((((((((((((.....))))))))(((((((((((..((.......))..))))))))))))))))))))....((((......))))...(((....)))......... ( -27.30)
>DroEre_CAF1 19823 119 - 1
CCUCAUAUAUGGACGA-CCAACACCCCUAUAUAGGGGUAGCUAUAUCUAAUUUCCAUAAGUUUGUUUAUUUUCCGUGUAUUUCGCUGAUGUUAUUCGGAUAGUGGCGACACAAAAGAAAG
.....((((((((.((-..(((((((((....))))))((((................)))).)))..)).))))))))((((.((((......))))...(((....)))....)))). ( -27.49)
>DroYak_CAF1 19756 119 - 1
CCGCAUAUAUGGACUA-CCAACACCCUUUUAUAGGGGUAGCUAUAUCUAAUUUCCAUGAGUCUGUUUAUUUUCCGUGUAUUUCGCUGAUGUUAUUCGGAUAGUGGCGACACAAAAGCAAG
..((..((((((.(((-((.....(((.....)))))))))))))).......((((..(((((..((...((.(((.....))).))...))..))))).))))..........))... ( -27.40)
>consensus
CCUCAUAUAUGGACUA_ACAACACCCUUAUAUAGGGGUAGGUAUAUCUAAUUUCCAUAAGUCUGCUUAUUUUCCGUGUAUUUCGCUGAUGUUAUUCGGAUAGUGGCGACACAAAAGAAAG
..(((((((((((.........((((((....)))))).................(((((....)))))..)))))))))....((((......))))...(((....)))....))... (-25.06 = -23.70 +  -1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 12,117,494 – 12,117,597
Length 103
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.05
Mean single sequence MFE -24.80
Consensus MFE -19.11
Energy contribution -19.17
Covariance contribution 0.06
Combinations/Pair 1.07
Mean z-score -2.14
Structure conservation index 0.77
SVM decision value 1.17
SVM RNA-class probability 0.925209
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12117494 103 + 22407834
CUACCCCUAUAAAAGGGUGUUGC-UGGUCCAUAUAUGAGGUUUAUAUUAUGC----------------AAAAUAUGGGCUUCGUAAUUAAUCUAUUAGAUUGUUGUUUAUGUAACCAAAC
.(((((........)))))....-((((.(((((((((((((((((((....----------------..)))))))))))))))..(((((.....))))).....))))..))))... ( -25.90)
>DroSec_CAF1 19626 104 + 1
CUACCCCUAUAUAAGGGUGUUAUAUAGUCCAUAUAUGAGGUUUAUAUUAUGC----------------AAAAUAUGGGCUUCGUAAUUAAUCUAUUAGAUUGUUGUUGAUUUAACUAAAC
..((((........))))((((...((((.((((((((((((((((((....----------------..)))))))))))))))..(((((.....))))).))).))))))))..... ( -23.00)
>DroSim_CAF1 19513 104 + 1
CUACCCCUAUAUAAGGGUGUUAUAUAGUCCAUAUAUGAGGUUUAUAUUAUGC----------------AAAAUAUGGGCUUCGUAAUUAAUCUAUUAGAUUGUUGUUUUAUUAACCAAAC
..((((........))))((((.((((..((..(((((((((((((((....----------------..)))))))))))))))..(((((.....))))).))..))))))))..... ( -23.50)
>DroEre_CAF1 19903 119 + 1
CUACCCCUAUAUAGGGGUGUUGG-UCGUCCAUAUAUGAGGCUUAUAUUAUGUAUUACGGCGACAAUGAAAAAUAUGUGCUUCGUAAUUAAUCCUUUAGAUUCUUGUUUAUUUAACAAAAC
.(((((((....))))))).(((-....)))..((((((((.((((((...((((..(....)))))...)))))).)))))))).................(((((.....)))))... ( -26.80)
>consensus
CUACCCCUAUAUAAGGGUGUUAU_UAGUCCAUAUAUGAGGUUUAUAUUAUGC________________AAAAUAUGGGCUUCGUAAUUAAUCUAUUAGAUUGUUGUUUAUUUAACCAAAC
..((((........))))((((...........(((((((((((((((......................)))))))))))))))..(((((.....))))).........))))..... (-19.11 = -19.17 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:14 2006