Locus 2238

Sequence ID 2L_DroMel_CAF1
Location 6,098,977 – 6,099,086
Length 109
Max. P 0.708884
window3593

overview

Window 3

Location 6,098,977 – 6,099,086
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.41
Mean single sequence MFE -39.74
Consensus MFE -25.62
Energy contribution -26.38
Covariance contribution 0.76
Combinations/Pair 1.28
Mean z-score -1.71
Structure conservation index 0.64
SVM decision value 0.37
SVM RNA-class probability 0.708884
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6098977 109 + 22407834
----------GAUUGGUGAUUGGUGCCAUAGCAGUCAGCUGUCUUCAGCUGAUGAACAGGGCUGCCAGACUGGUGACGUGAGCAA-ACAGCUGAUGGGCUGCAAUGUUAACAGCUGGAAA
----------(((.(.((((((.((...)).)))))).).)))((((((((...((((..((.(((.....(....)((.(((..-...))).)).))).))..))))..)))))))).. ( -39.80)
>DroSec_CAF1 17742 108 + 1
----------GAU-GAUGAUUGGUGUCAUAGCAGUCAGCUGUCUUCAGCUGAUGAACAGGGCUGCCAGACUGGUGACGUGAGCAA-ACAGCUGAUAGGCUCCAAUGUUAACAGCUGGACA
----------...-.........((((.((((.((((((((....)))))))).(((((((((..(((.(((.((.(....))).-.))))))...)))))...))))....)))))))) ( -36.60)
>DroSim_CAF1 18055 109 + 1
----------GAU-GGUGAUUGGUGUCAUAGCAGUCAGUUGUCUUCAGCUGAUGAACAGGGCUGCCAGACUGGUGACGUGAGCAAAACAGCUGAUGGGCUCCAAUGUUAACAGCUGGAAA
----------((.-.(((((((.((...)).)))))).)..))((((((((...(((((((((..(((.(((.((.(....)))...))))))...)))))...))))..)))))))).. ( -36.90)
>DroEre_CAF1 24798 118 + 1
UGGAUAGAUGGAU-GGUGCUGGGUGCCAUAGCAGUCGGCUGUUUUCGGCCUCCGAGCAGGGCUGCCAGACCGCUGCGGUGCUCGA-ACAGCUGCUGGAACUCAACGCUAACAGCUGGAAA
....(((.((..(-((((.(((((.(((..(((((.(((((....)))))..((((((..((.((......)).))..)))))).-...)))))))).))))).))))).)).))).... ( -45.30)
>DroYak_CAF1 25310 118 + 1
UAGGUGGAUGGAU-GGAGCUGGGUGCCAUAGCAGUCGUCUAUUUUCAGCCUCUGAACAGGGCUGCCAGAUCGCUGCGGUGCACAA-ACAGCUGGUGUAUUGCAACGUUAACAGCUGGAAA
(((.((....(((-(.(((((.(((((...(((((.((((.....(((((.((....)))))))..)))).))))).).))))..-.))))).((.....))..))))..)).))).... ( -40.10)
>consensus
__________GAU_GGUGAUUGGUGCCAUAGCAGUCAGCUGUCUUCAGCUGAUGAACAGGGCUGCCAGACUGGUGACGUGAGCAA_ACAGCUGAUGGGCUCCAAUGUUAACAGCUGGAAA
...................((((((((......((((((((....))))))))......))).)))))...................((((((...(((......)))..)))))).... (-25.62 = -26.38 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:49 2006