Locus 696

Sequence ID 2R_DroMel_CAF1
Location 3,416,652 – 3,416,768
Length 116
Max. P 0.803707
window1227

overview

Window 7

Location 3,416,652 – 3,416,768
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.47
Mean single sequence MFE -34.22
Consensus MFE -16.99
Energy contribution -18.35
Covariance contribution 1.36
Combinations/Pair 1.25
Mean z-score -2.13
Structure conservation index 0.50
SVM decision value 0.63
SVM RNA-class probability 0.803707
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3416652 116 + 20766785
ACAGUACAGGCAGAGCAAGAACCA-AAUAUGAUUACCGAGAGUAAGUAUCUCCUGGACAUCCGGGAGA-UGUUCUCUGGGGAAUC--CCAGUCUGAUUCCCCAACGAUAUUUGCAUGUCA
........((((..(((((.....-............(((((....((((((((((....))))))))-)))))))(((((((((--.......)))))))))......))))).)))). ( -43.30)
>DroSec_CAF1 46758 116 + 1
ACAGUACGGGCAGAGCAAGAACCA-AAUAUGAUUACCGAGAGUAAGUAUCUCCUGGACAUCCGGGAGA-UGUUCUCUGGGGAAUC--CCAGUCCGAGUCCCCAACGAUAUUUGCAUGUCA
........((((..(((((.....-............(((((....((((((((((....))))))))-)))))))((((((.((--.......)).))))))......))))).)))). ( -39.50)
>DroSim_CAF1 50882 116 + 1
ACAGUACGGGCAGAGCAAGAACCA-AAUAUGAUUACCGAGAGUAAGUAUCUCCUGGACAUCCGGGAGA-UGUUCUCUGGGGAAUC--CCAGUCCGAGUCCCCAACGAUAUUUGCAUGUCA
........((((..(((((.....-............(((((....((((((((((....))))))))-)))))))((((((.((--.......)).))))))......))))).)))). ( -39.50)
>DroEre_CAF1 47533 114 + 1
AUGGUGUAGACAGAGCAAGAACCA-AAUAUGAUUACCG--AGUAAGUAUCUUCGGCACAUCCGGGAGA-UGUUCUCUGGGAAAUC--CCAGUGAGAUUCUCCUUCGAUAUUUGCAUGUCA
........((((..(((((.....-..........(((--((........)))))...(((.((((((-..(((.(((((....)--)))).)))..))))))..))).))))).)))). ( -36.10)
>DroYak_CAF1 50114 114 + 1
AUAGUACAAGCAGAGCAAGAACCA-AAUAUGAUUAACG--AGUAAGUAUCUUCUGAAUAUCCGGGAGA-UGUUCUGUGGAAAGUC--CCAAACUGAUUCUCCUACGAUAUUUGCAUGUCA
...(((...(((((((........-..........((.--.....))((((((((......)))))))-))))))))(((.((((--.......)))).))))))(((((....))))). ( -25.50)
>DroAna_CAF1 46294 103 + 1
-----------UAAGUAGAAACGUUAUUAGGACUGUCCGAAAUAA-UAU-UACUGGAUAUCCGGGAUACUGUACUGUGGAUCGGCCGCCACU-CGAGUU---AUGGACAUUUGCAUGUCA
-----------...((((...((......((.(((((((..(((.-(((-(.((((....)))))))).)))....)))).)))))......-))..))---)).(((((....))))). ( -21.40)
>consensus
ACAGUACAGGCAGAGCAAGAACCA_AAUAUGAUUACCGAGAGUAAGUAUCUCCUGGACAUCCGGGAGA_UGUUCUCUGGGGAAUC__CCAGUCCGAGUCCCCAACGAUAUUUGCAUGUCA
........((((..((((((((..........((((.....))))...((((((((....))))))))..)))).((((........))))...................)))).)))). (-16.99 = -18.35 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:53 2006