Locus 502

Sequence ID 2R_DroMel_CAF1
Location 2,742,129 – 2,742,231
Length 102
Max. P 0.975797
window953 window954

overview

Window 3

Location 2,742,129 – 2,742,231
Length 102
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 94.34
Mean single sequence MFE -42.77
Consensus MFE -38.57
Energy contribution -38.57
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.47
Structure conservation index 0.90
SVM decision value 1.76
SVM RNA-class probability 0.975797
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2742129 102 + 20766785
CUUCUGUGGCUCCUGC------UCCUCCAGCUGCAGCUACAGCUGCAGUGCUGGCCGGGAGUCCUGGAAGAUGCUUGCCGUAGACCUUGUUGUUUGCACCUUUGCUUU
((((((.((((((((.------.((....((((((((....))))))))...)).)))))))).))))))..((..(..((((((......))))))..)...))... ( -41.00)
>DroSec_CAF1 26332 108 + 1
CUUCUGUGGCUCCUGCUCCAGCUCCUCCAGCUGCAGCUACAGCUGCAGUGCUGGCCGGGAGUCCUGGAAGGUACUUGCUGUAGACCUUGUUGUUUGCACCUUUGCUUU
((((((.((((((((..(((((.......((((((((....))))))))))))).)))))))).))))))(((...(.(((((((......))))))).)..)))... ( -46.51)
>DroSim_CAF1 12769 102 + 1
CUUCUGUGGCUCCUGC------UCCUCCAGCUGCAGCUACAGCUGCAGUGCUGGCCGGGAGUCCUGGAAGAUACUUGCCGUAGACCUUGUUGUUUGCACCUUUGCUUU
((((((.((((((((.------.((....((((((((....))))))))...)).)))))))).)))))).........((((((......))))))........... ( -40.80)
>consensus
CUUCUGUGGCUCCUGC______UCCUCCAGCUGCAGCUACAGCUGCAGUGCUGGCCGGGAGUCCUGGAAGAUACUUGCCGUAGACCUUGUUGUUUGCACCUUUGCUUU
((((((.((((((((...........(((((((((((....))))))..))))).)))))))).)))))).........((((((......))))))........... (-38.57 = -38.57 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 2,742,129 – 2,742,231
Length 102
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 94.34
Mean single sequence MFE -35.87
Consensus MFE -30.77
Energy contribution -30.33
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -2.14
Structure conservation index 0.86
SVM decision value 0.31
SVM RNA-class probability 0.681806
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2742129 102 - 20766785
AAAGCAAAGGUGCAAACAACAAGGUCUACGGCAAGCAUCUUCCAGGACUCCCGGCCAGCACUGCAGCUGUAGCUGCAGCUGGAGGA------GCAGGAGCCACAGAAG
...((..((((((...(.....)((.....))..))))))(((..(.((((...(((((..((((((....))))))))))).)))------)).)))))........ ( -34.60)
>DroSec_CAF1 26332 108 - 1
AAAGCAAAGGUGCAAACAACAAGGUCUACAGCAAGUACCUUCCAGGACUCCCGGCCAGCACUGCAGCUGUAGCUGCAGCUGGAGGAGCUGGAGCAGGAGCCACAGAAG
...(((....))).......(((((((......)).)))))...((.((((.(.(((((.((.(((((((....))))))).))..)))))..).))))))....... ( -40.10)
>DroSim_CAF1 12769 102 - 1
AAAGCAAAGGUGCAAACAACAAGGUCUACGGCAAGUAUCUUCCAGGACUCCCGGCCAGCACUGCAGCUGUAGCUGCAGCUGGAGGA------GCAGGAGCCACAGAAG
...(((....)))...........(((..(((........(((..(.((((...(((((..((((((....))))))))))).)))------)).))))))..))).. ( -32.90)
>consensus
AAAGCAAAGGUGCAAACAACAAGGUCUACGGCAAGUAUCUUCCAGGACUCCCGGCCAGCACUGCAGCUGUAGCUGCAGCUGGAGGA______GCAGGAGCCACAGAAG
......(((((((...(.....)((.....))..)))))))...((.(((((..(((((..((((((....)))))))))))..)..........))))))....... (-30.77 = -30.33 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:20 2006