Locus 5121

Sequence ID 2R_DroMel_CAF1
Location 16,656,985 – 16,657,119
Length 134
Max. P 0.988741
window8187 window8188

overview

Window 7

Location 16,656,985 – 16,657,087
Length 102
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 71.35
Mean single sequence MFE -35.82
Consensus MFE -18.56
Energy contribution -19.17
Covariance contribution 0.62
Combinations/Pair 1.38
Mean z-score -2.30
Structure conservation index 0.52
SVM decision value 2.13
SVM RNA-class probability 0.988741
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16656985 102 - 20766785
UUCCAGGUGGCUGCAGCAAAUGCCGCUGCUGCAGCCAAUGCCGCUGCUGCCAACGGAAACGG---------GGGCUCAACGCUGGAUCCCAAUGCUAGCGUUUACACGCCG
.(((((.(((((((((((........)))))))))))....((.((..(((..((....)).---------.))).)).)))))))...........((((....)))).. ( -45.20)
>DroPse_CAF1 7719 93 - 1
CUCCAGGUGGCUGCUGCC------------------AAUGCAGCUGCCGCAAAUGGGAACGGCAACAAUGGCAACUCCACACUGGAUCCCAAUGCCAGCGUCUACACGCCC
.((((.(((((.(((((.------------------...))))).)))))...))))...((((....(((....(((.....)))..))).)))).((((....)))).. ( -35.70)
>DroSec_CAF1 5518 84 - 1
UUCCAGGUGGCUGC------------------AGCCAACGCCGCUGCUGCCAACGGAAACGG---------AGGCUCAACGCUAGAUCCCAAUGCUAGCGUUUACACGCCG
.(((.(.((((.((------------------(((.......))))).)))).)(....)))---------)(((..((((((((.........)))))))).....))). ( -34.10)
>DroSim_CAF1 5537 84 - 1
UUCCAGGUGGCUGC------------------AGCCAAUGCCGCUGCUGCCAACGGAAACGG---------AGGCUCAACGCUGGAUCCCAAUGCUAGCGUUUACACGCCG
.(((.(.((((.((------------------(((.......))))).)))).)(....)))---------)(((..((((((((.........)))))))).....))). ( -33.80)
>DroYak_CAF1 5569 87 - 1
UUCCAGGUUGCUGCCGCCAAUGCCAAUG---------------CUGCUGCCAACGGAAAUGG---------GGGCUCAACGCUGGAUCCCAAUGCUAGCGUGUACACGCCG
.(((((((((..(((.(((...((...(---------------(....))....))...)))---------.))).)))).)))))...........((((....)))).. ( -30.60)
>DroAna_CAF1 5627 84 - 1
CUGCAGGUGGCUGCGGCA------------------AAUGCUGCUGCCGCCAACGGAAACGG---------UUCGUCCACGUUGGAUCCUAACGCCAGUGUGUACACGCCC
..((.((((((.(((((.------------------...))))).))))))..((....)).---------...((.((((((((.........)))))))).))..)).. ( -35.50)
>consensus
UUCCAGGUGGCUGC_GC___________________AAUGCCGCUGCUGCCAACGGAAACGG_________AGGCUCAACGCUGGAUCCCAAUGCUAGCGUUUACACGCCG
.....((((((.((............................)).))))))..((....))...........(((..((((((((.........)))))))).....))). (-18.56 = -19.17 +   0.62)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 16,657,025 – 16,657,119
Length 94
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 77.30
Mean single sequence MFE -35.73
Consensus MFE -20.92
Energy contribution -21.75
Covariance contribution 0.83
Combinations/Pair 1.18
Mean z-score -1.93
Structure conservation index 0.59
SVM decision value 0.91
SVM RNA-class probability 0.879208
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16657025 94 - 20766785
AGCAAAUGGUGCCGGUCAGUGUGGCAGCUGCCUUCCAGGUGGCUGCAGCAAAUGCCGCUGCUGCAGCCAAUGCCGCUGCUGCCAACGGAAACGG
.(((.....))).((.((((((((((...(((.....)))((((((((((........))))))))))..)))))).))))))..((....)). ( -46.00)
>DroSec_CAF1 5558 76 - 1
AGCAAAUGGUGCCGGUCAGUGUGGCGGCUGCCUUCCAGGUGGCUGC------------------AGCCAACGCCGCUGCUGCCAACGGAAACGG
.(((.....))).((.(((((((((((((((...((....))..))------------------))))...))))).))))))..((....)). ( -33.30)
>DroSim_CAF1 5577 76 - 1
AGCAAAUGGUGCCGGUCAGUGUGGCGGCUGCCUUCCAGGUGGCUGC------------------AGCCAAUGCCGCUGCUGCCAACGGAAACGG
.(((.....))).((.(((((((((((((((...((....))..))------------------))))...))))).))))))..((....)). ( -33.30)
>DroEre_CAF1 5613 94 - 1
AGCAAAUGGUGCCGGUCAGUGUCGCAGCUGCCUUCCAAGUUGCUGCAGCCAAUGCCGCUGCUGCAGCCAAUGCCGCUGCUGCCAACGGAAACGG
.(((...((..(......)..))(((((.((.......(((((.(((((.......))))).)))))....)).))))))))...((....)). ( -34.20)
>DroYak_CAF1 5609 79 - 1
AGCAAAUGGUGCCGGUCAGUGUGGCAGCUGCCUUCCAGGUUGCUGCCGCCAAUGCCAAUG---------------CUGCUGCCAACGGAAAUGG
.(((.....))).((.((((((((((((.(((.....))).))))))))....((....)---------------).))))))........... ( -28.20)
>DroAna_CAF1 5667 76 - 1
AGCAGAUGGUGCCAGUCAGUGUGGCUGCUGCACUGCAGGUGGCUGCGGCA------------------AAUGCUGCUGCCGCCAACGGAAACGG
.((((...((..(((((.....)))))..)).)))).((((((.(((((.------------------...))))).))))))..((....)). ( -39.40)
>consensus
AGCAAAUGGUGCCGGUCAGUGUGGCAGCUGCCUUCCAGGUGGCUGC_GC_______________AGCCAAUGCCGCUGCUGCCAACGGAAACGG
......(((((.((((.......(((((((((.....)))))))))...................((....)).)))).))))).((....)). (-20.92 = -21.75 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:03 2006