Locus 1159

Sequence ID 2L_DroMel_CAF1
Location 3,171,021 – 3,171,136
Length 115
Max. P 0.782699
window1877

overview

Window 7

Location 3,171,021 – 3,171,136
Length 115
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 75.33
Mean single sequence MFE -23.73
Consensus MFE -15.81
Energy contribution -15.77
Covariance contribution -0.04
Combinations/Pair 1.23
Mean z-score -1.57
Structure conservation index 0.67
SVM decision value 0.56
SVM RNA-class probability 0.782699
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3171021 115 + 22407834
UGGUAUUU--UAAAUAUUUUCAAAUUAAAUGAGACGGUUUAUUUAUUAUAGGGAAUAGUUUGUUUACCAUUUUGGCAUAGCAUUCAGUUUGCUAGUGGAAUGAUCACCCUGUUCCCA
(((((...--(((((..(((((.......)))))..)))))..)))))..((((((((..((.(((((((..(((((.(((.....))))))))))))..))).))..)))))))). ( -28.40)
>DroSec_CAF1 6587 110 + 1
UGGUAUUU--UAGAUAUUUUAAAAUGAAAUGAGACGUUUUAUUUAUUAGAGGAAAUAGUUUGUUUACCAUUUU-----AGCAUUCAGAUUGCUAGUGGAAUGAUCACCCUGUUCCCA
........--...........((((((((((...))))))))))......((.(((((..((.(((((((..(-----((((.......)))))))))..))).))..))))).)). ( -20.70)
>DroSim_CAF1 7121 110 + 1
UGGUAUUU--UAGAUAUUUUAAAAUGAAAUGAGACGUUUUAUAUAUUAGAGGAAAUAGUUUGUUUACCAUUUU-----AGCAUUCAGAUUGCUAGUGGAAUGAUCACCCUGUUCCCA
........--..(((((..(((((((........))))))).)))))...((.(((((..((.(((((((..(-----((((.......)))))))))..))).))..))))).)). ( -21.00)
>DroEre_CAF1 7493 97 + 1
UUGUAUUAACUAGAUA--------------------UUUUAUUUAUUAGAGGCAAUAGUUUGUUUACCAUUUCGGCUUUGCAUUCACUUUGCUGGUGGCAUAGGCACCCUGUUGCCG
.....((((.((((((--------------------...)))))))))).((((((((..((((((((((..((((..............))))))))..))))))..)))))))). ( -24.84)
>DroYak_CAF1 6677 97 + 1
UUGUAUUUACUAGAUA--------------------UUUCAUGUAUUAGAGGGAAUAGUUUGUUUACCAUUUCGGCGUUGCUUUCAGAUUGCAGGUUGCAUAAACACCCUGUUCCCA
.........((.((((--------------------(.....))))))).((((((((..((((((......((((.((((.........))))))))..))))))..)))))))). ( -23.70)
>consensus
UGGUAUUU__UAGAUAUUUU_AAAU_AAAUGAGACGUUUUAUUUAUUAGAGGAAAUAGUUUGUUUACCAUUUUGGC_UAGCAUUCAGAUUGCUAGUGGAAUGAUCACCCUGUUCCCA
..................................................((((((((..((.((((((((.......((((.......)))))))))..))).))..)))))))). (-15.81 = -15.77 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:03 2006