Locus 5976

Sequence ID 2L_DroMel_CAF1
Location 16,841,322 – 16,841,416
Length 94
Max. P 0.985929
window9492 window9493

overview

Window 2

Location 16,841,322 – 16,841,416
Length 94
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 84.59
Mean single sequence MFE -37.77
Consensus MFE -29.27
Energy contribution -29.93
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -4.03
Structure conservation index 0.77
SVM decision value 2.02
SVM RNA-class probability 0.985929
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16841322 94 + 22407834
AG---UGGCAAUUGCUGCAAUGUUGCCACAGGCAGCUGGUUUAUUGGUUGCCAAAUAUUUGUGCAACGGAAACGUGAAACACGGCAGCAAAACUUGG------
.(---..((....))..)..(((((((...((((((..(....)..))))))........(((..(((....)))....))))))))))........------ ( -37.70)
>DroEre_CAF1 943 102 + 1
CGUGGUGGCAAUUGCUGCAAUGUUGCCACUGGCAGCUGGU-UAUUGGUUGCCAAAUAUUUGUGCAACGGAAACGUGAAGCACGGCAGCCAAACUUAGGAGUAC
....(..((....))..)...((((((..(((((((..(.-..)..))))))).......((((.(((....)))...))))))))))............... ( -39.00)
>DroAna_CAF1 650 98 + 1
CG---UGGCAAUUGCUGCAAUGUUGCCACUGGCAGCUGGU-UAUUGGUUGCCAAAUAUUUGUGCAACGGAAACAUGAAA-ACGGCAGCAACACCACAAUACAC
.(---(((...(((((((...(((((((.(((((((..(.-..)..)))))))......)).)))))(....)......-...)))))))..))))....... ( -36.60)
>consensus
CG___UGGCAAUUGCUGCAAUGUUGCCACUGGCAGCUGGU_UAUUGGUUGCCAAAUAUUUGUGCAACGGAAACGUGAAACACGGCAGCAAAACUUAG____AC
......(((....))).....((((((...((((((..(....)..))))))........(((..(((....)))....)))))))))............... (-29.27 = -29.93 +   0.67)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,841,322 – 16,841,416
Length 94
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 84.59
Mean single sequence MFE -28.63
Consensus MFE -21.07
Energy contribution -21.40
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.74
SVM decision value 0.56
SVM RNA-class probability 0.782921
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16841322 94 - 22407834
------CCAAGUUUUGCUGCCGUGUUUCACGUUUCCGUUGCACAAAUAUUUGGCAACCAAUAAACCAGCUGCCUGUGGCAACAUUGCAGCAAUUGCCA---CU
------....((.(((((((.(((((....((((..(((((.(((....))))))))....))))..((((....))))))))).)))))))..))..---.. ( -25.80)
>DroEre_CAF1 943 102 - 1
GUACUCCUAAGUUUGGCUGCCGUGCUUCACGUUUCCGUUGCACAAAUAUUUGGCAACCAAUA-ACCAGCUGCCAGUGGCAACAUUGCAGCAAUUGCCACCACG
..........((.((((((((((((...(((....))).))))........)))).......-....(((((.((((....)))))))))....))))..)). ( -29.90)
>DroAna_CAF1 650 98 - 1
GUGUAUUGUGGUGUUGCUGCCGU-UUUCAUGUUUCCGUUGCACAAAUAUUUGGCAACCAAUA-ACCAGCUGCCAGUGGCAACAUUGCAGCAAUUGCCA---CG
.......(((((((((((((...-......(((...(((((.(((....))))))))....)-))..(.((((...)))).)...))))))).)))))---). ( -30.20)
>consensus
GU____CCAAGUUUUGCUGCCGUGUUUCACGUUUCCGUUGCACAAAUAUUUGGCAACCAAUA_ACCAGCUGCCAGUGGCAACAUUGCAGCAAUUGCCA___CG
...............((...................(((((.(((....))))))))..........(((((.((((....)))))))))....))....... (-21.07 = -21.40 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:56 2006