Locus 182

Sequence ID 3L_DroMel_CAF1
Location 535,129 – 535,262
Length 133
Max. P 0.877001
window262 window263

overview

Window 2

Location 535,129 – 535,247
Length 118
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 93.15
Mean single sequence MFE -33.62
Consensus MFE -27.72
Energy contribution -27.24
Covariance contribution -0.48
Combinations/Pair 1.12
Mean z-score -1.44
Structure conservation index 0.82
SVM decision value 0.31
SVM RNA-class probability 0.683573
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 535129 118 + 23771897
CACAAUCGAUGGCAGAAAUGAAAUUGU-UUUUUCACAACUCAAAACUCGGGAAGGUCAAACUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAG
.......(((..((....))..)))((-((((((((..(((.......)))....((...(((((....(((((((.((....))))))))).))))).)).....))))))).))).. ( -34.50)
>DroSec_CAF1 9224 117 + 1
CACAAUCAAUGGCAGAAACGAAAUCGU-U-UUUCACAACUCAAAACUCGGGAAGGUCAAACUGGGGUUGGGUGGGUACUUAAAGGGUCCGCCACUCAGGGAAACUGGUGAAAAUGACAG
.........((..(((((((....)))-)-)))..)).(((.......)))...((((..(((((....((((((..(.....)..)))))).)))))(....).........)))).. ( -29.70)
>DroSim_CAF1 10089 117 + 1
CACAAUCAAUGGCAGAAACGAAAUCGU-U-UUUCACAACUCAAAACUCGGGAAGGUCAAACUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAG
.........(((((((((((....)))-)-))).....(((.......)))...))))..(((((....(((((((.((....))))))))).)))))(....)((((....))))... ( -34.40)
>DroEre_CAF1 9514 119 + 1
CGCCAUCGAUGGCAGAAAUACAAUUUUUUUUUUCACAACUCAAAACUCGGGAAGGUCAAAUUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAG
.((((....))))................(((((((..(((.......)))....((...(((((....(((((((.((....))))))))).))))).)).....)))))))...... ( -33.30)
>DroYak_CAF1 9658 118 + 1
CUCAAUCAAUGGGAGAAAUAAAAUUGU-GUUUUCACAACUCAAAACGCGGGAAGGUCAAACUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAG
.....(((.(((((....)....((((-(....)))))))))...((((((....((...(((((....(((((((.((....))))))))).))))).))..))))))....)))... ( -36.20)
>consensus
CACAAUCAAUGGCAGAAAUGAAAUUGU_UUUUUCACAACUCAAAACUCGGGAAGGUCAAACUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAG
..............................((((((..(((.......)))..(((....(((((....(((((((.((....))))))))).)))))....))).))))))....... (-27.72 = -27.24 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 535,168 – 535,262
Length 94
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 87.18
Mean single sequence MFE -34.00
Consensus MFE -30.80
Energy contribution -30.32
Covariance contribution -0.48
Combinations/Pair 1.12
Mean z-score -1.63
Structure conservation index 0.91
SVM decision value 0.90
SVM RNA-class probability 0.877001
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 535168 94 + 23771897
CAAAACUCGGGAAGGUCAAACUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAGCUGUCCGUGAUGAC-------------------------U
.....(.((((...((((..(((((....(((((((.((....))))))))).)))))(....).........)))).....)))).).....-------------------------. ( -32.50)
>DroSec_CAF1 9262 94 + 1
CAAAACUCGGGAAGGUCAAACUGGGGUUGGGUGGGUACUUAAAGGGUCCGCCACUCAGGGAAACUGGUGAAAAUGACAGCUGUCCGUGAUGAC-------------------------U
.....(.((((...((((..(((((....((((((..(.....)..)))))).)))))(....).........)))).....)))).).....-------------------------. ( -28.10)
>DroSim_CAF1 10127 94 + 1
CAAAACUCGGGAAGGUCAAACUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAGCUGUCCGUGAUGAC-------------------------U
.....(.((((...((((..(((((....(((((((.((....))))))))).)))))(....).........)))).....)))).).....-------------------------. ( -32.50)
>DroEre_CAF1 9554 101 + 1
CAAAACUCGGGAAGGUCAAAUUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAGCUGUCCGUGAUGACUGUA------------------GACU
......((.....(((((...(((((((((((((((.((....)))))))))......(....)((((....)))))))))..)))...)))))...------------------)).. ( -30.60)
>DroYak_CAF1 9697 119 + 1
CAAAACGCGGGAAGGUCAAACUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAGCUGUCCGUGAUGACUGCGGACUGUAGACUGUGUGUUGACU
(((.((((((....((((..(((((....(((((((.((....))))))))).)))))(....).........)))).((.((((((.......)))))).))...)))))).)))... ( -46.30)
>consensus
CAAAACUCGGGAAGGUCAAACUGGGGUUGGGCGGGCACUUAAAGGGUCCGCCACUCAGGGAAACUCGUGAAAAUGACAGCUGUCCGUGAUGAC_________________________U
.....(.((((...((((..(((((....(((((((.((....))))))))).)))))(....).........)))).....)))).)............................... (-30.80 = -30.32 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:08 2006