Locus 1143

Sequence ID 2R_DroMel_CAF1
Location 4,558,993 – 4,559,083
Length 90
Max. P 0.612593
window2012

overview

Window 2

Location 4,558,993 – 4,559,083
Length 90
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 80.28
Mean single sequence MFE -19.60
Consensus MFE -11.12
Energy contribution -11.56
Covariance contribution 0.44
Combinations/Pair 1.19
Mean z-score -1.88
Structure conservation index 0.57
SVM decision value 0.16
SVM RNA-class probability 0.612593
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4558993 90 + 20766785
GCUUAGUCGAAGUUAUCUCGAUGAUAAAUGGUCUGAGC--------AU-------------UAUAAAUGAUAAGAAAUGUGUUC-UUUCGGAAACUAGGAACAUAAAUGAUU
(((((((((...(((((.....))))).))).))))))--------..-------------................(((((((-((..(....).)))))))))....... ( -22.90)
>DroSec_CAF1 32263 90 + 1
GCUUAGUCGAAGUUAUCUUGAUGAUAAAUGGCCUGAGC--------AU-------------UAUAAAUGAUAUGAAAUGUGUUC-UUUGGGAAAAUAGGAACAUAAAUGAUU
(((((((((...(((((.....))))).))).))))))--------..-------------................(((((((-((.........)))))))))....... ( -20.00)
>DroSim_CAF1 32941 90 + 1
GCUUAGUCGAAGUUAUCUUGAUGAUAAAUGGCCUGAGC--------AU-------------UAUAAAUGAUAAGAAAUGUGUUC-UUUGGGAAACUAAGAACAUAAAUGAUU
(((((((((...(((((.....))))).))).))))))--------..-------------................(((((((-((.((....)))))))))))....... ( -25.00)
>DroEre_CAF1 32784 93 + 1
GCAAAGCCGAAGUUAUCUGGAUGAUAAAUGGCCUGAGC------ACAU-------------UAUAAAUGAUAAGAAAUAUGUUUUUUUCCGAAAUUAGAAACAUAAAUGAUU
((..(((((...(((((.....))))).))).))..))------....-------------................(((((((((..........)))))))))....... ( -14.90)
>DroYak_CAF1 32688 111 + 1
GCAAAGUCCAAGUUAUCUUAAUUUUAAAUGACCUGAGCUUGAGCAUAUAACAUAAGUUAAAAAUAAAUGAUAAGAAAUGUGUUU-UUUCCGUAAUUAGAAACAUAGAUGAUU
((.(((..((.(((((.(((....)))))))).))..)))..))...((((....))))..................(((((((-((.........)))))))))....... ( -15.20)
>consensus
GCUUAGUCGAAGUUAUCUUGAUGAUAAAUGGCCUGAGC________AU_____________UAUAAAUGAUAAGAAAUGUGUUC_UUUCGGAAACUAGGAACAUAAAUGAUU
(((((((((...(((((.....))))).))).)))))).......................................(((((((..............)))))))....... (-11.12 = -11.56 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:34 2006