Locus 1657

Sequence ID 2R_DroMel_CAF1
Location 6,263,741 – 6,263,891
Length 150
Max. P 0.980784
window2765 window2766

overview

Window 5

Location 6,263,741 – 6,263,859
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 84.41
Mean single sequence MFE -37.32
Consensus MFE -26.10
Energy contribution -28.14
Covariance contribution 2.04
Combinations/Pair 1.28
Mean z-score -2.09
Structure conservation index 0.70
SVM decision value 0.67
SVM RNA-class probability 0.817909
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6263741 118 - 20766785
UAUCUGGUUGGCAUUGUAUUACAGGCUCUUUGGGCCAACAAGAUGCCGAAACUCUUGGGUCUUGUGCCUGUGAUGCCAUAAAGGCAUUGGUUUAUCAGCUGAAUUCCAGCAUUCAGAA
..(((((..(((...........((((.....)))).(((((((.((((.....))))))))))))))...((((((.....)))))).........((((.....))))..))))). ( -38.90)
>DroSec_CAF1 6910 118 - 1
UAUCUGGCUGGCAUUGUAUUACAGGCUCUUUGGGCCAACAAGAUGCCGAAACUCUUGGGUCUUGUGUCUGUGAUGCCAUAAAGGCAUUGGCUUAUCAGCUGAAUUCCAGCAUUCGGAA
..(((((.((((((..((..((.((((.....)))).(((((((.((((.....))))))))))))).))..))))))...((((....))))....((((.....))))..))))). ( -39.30)
>DroSim_CAF1 7133 118 - 1
UAUCUGGCUGGCAUUGUAUUACAGGCUCUUUGGGCCAACAAGAUGCCGAAACUCUUGGGUCUUGUGUCUGUGAUGCCAUAAAGGCAUUGGUUUAUCAGCUGAAUUCCAGCAUUCGGAA
..(((((((...((.((((((((((((.....)))).(((((((.((((.....)))))))))))...)))))))).))...)))............((((.....))))...)))). ( -37.60)
>DroEre_CAF1 6782 93 - 1
UAUCCGGCUGGCAUUGUACUGCAGGCUCUUUGGGCCAACAAGAUGCCGAAGCG----------CUGCCUCCGA---------------GGUUUAUCAGCUGAAUUCCAGCAUUCGGCA
.((((((..((((..(..((...(((..((((......))))..)))..))..----------))))).))).---------------)))......(((((((......))))))). ( -29.30)
>DroYak_CAF1 7729 117 - 1
UAUCUGGCUGGCAUUGUGUUACAGGCUCUUUGGG-CAACAAGAUGCCGAAACUCUUGGCGUCUCUGCCUGUGAUAGCAUAAAGGCAUUGGUUUAUCAGCUGAAUUCCAGCAUUCAGAA
..(((((((.....((((((((((((......(.-...).(((((((((.....)))))))))..)))))))))).))....)))............((((.....))))...)))). ( -41.50)
>consensus
UAUCUGGCUGGCAUUGUAUUACAGGCUCUUUGGGCCAACAAGAUGCCGAAACUCUUGGGUCUUGUGCCUGUGAUGCCAUAAAGGCAUUGGUUUAUCAGCUGAAUUCCAGCAUUCGGAA
..(((((((((.((((((((((((((.....(((((..(((((.........))))))))))...)))))))))))............(((......))).))).)))))...)))). (-26.10 = -28.14 +   2.04)

alignment

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secondary structure

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dotplot

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Window 6

Location 6,263,779 – 6,263,891
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.12
Mean single sequence MFE -40.70
Consensus MFE -26.84
Energy contribution -27.16
Covariance contribution 0.32
Combinations/Pair 1.15
Mean z-score -2.78
Structure conservation index 0.66
SVM decision value 1.87
SVM RNA-class probability 0.980784
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6263779 112 - 20766785
U--------GGGUAUUGUAGUUGGGCUGAAUGGUUUGCGGUAUCUGGUUGGCAUUGUAUUACAGGCUCUUUGGGCCAACAAGAUGCCGAAACUCUUGGGUCUUGUGCCUGUGAUGCCAUA
.--------.(((((..(((..(((((.((.(((((.((((((((.((((((.(((.....))).........)))))).))))))))))))).)).))))).....)))..)))))... ( -44.60)
>DroSec_CAF1 6948 112 - 1
U--------GGGUAUUGUACUUGGGCGGAAUGGUUUGUGGUAUCUGGCUGGCAUUGUAUUACAGGCUCUUUGGGCCAACAAGAUGCCGAAACUCUUGGGUCUUGUGUCUGUGAUGCCAUA
.--------.(((((..((..(((.(.(((.((((((((((((...(....)...)))))))))))).))).).)))(((((((.((((.....)))))))))))...))..)))))... ( -39.10)
>DroSim_CAF1 7171 112 - 1
U--------GGGCAUUGUAGUUGGGCGGAAUGGUUUGUGGUAUCUGGCUGGCAUUGUAUUACAGGCUCUUUGGGCCAACAAGAUGCCGAAACUCUUGGGUCUUGUGUCUGUGAUGCCAUA
.--------.(((((..(((.(((.(.(((.((((((((((((...(....)...)))))))))))).))).).)))(((((((.((((.....)))))))))))..)))..)))))... ( -43.80)
>DroEre_CAF1 6812 94 - 1
---------GGGCAUUGUAGUUGAGCUGAAUGGUUUGUGGUAUCCGGCUGGCAUUGUACUGCAGGCUCUUUGGGCCAACAAGAUGCCGAAGCG----------CUGCCUCCGA-------
---------.((((((...((((.(((.((.((((((..((((...(....)...))))..))))))..)).)))))))..))))))((.((.----------..)).))...------- ( -32.10)
>DroYak_CAF1 7767 119 - 1
UGGUUAACUGGGUAUUGUAGUUCAGCAGAAUGGUUUGUGGUAUCUGGCUGGCAUUGUGUUACAGGCUCUUUGGG-CAACAAGAUGCCGAAACUCUUGGCGUCUCUGCCUGUGAUAGCAUA
..((((.(..(((((..(((..((......))..)))..)))))..).))))..((((((((((((......(.-...).(((((((((.....)))))))))..)))))))))).)).. ( -43.90)
>consensus
U________GGGUAUUGUAGUUGGGCGGAAUGGUUUGUGGUAUCUGGCUGGCAUUGUAUUACAGGCUCUUUGGGCCAACAAGAUGCCGAAACUCUUGGGUCUUGUGCCUGUGAUGCCAUA
..........((((((...(((((.(..((.((((((((((((...(....)...)))))))))))).))..).)))))..))))))................................. (-26.84 = -27.16 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:52 2006