Locus 2763

Sequence ID 2R_DroMel_CAF1
Location 9,680,942 – 9,681,054
Length 112
Max. P 0.728644
window4575 window4576

overview

Window 5

Location 9,680,942 – 9,681,054
Length 112
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 90.16
Mean single sequence MFE -29.52
Consensus MFE -21.68
Energy contribution -21.72
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.98
Structure conservation index 0.73
SVM decision value 0.42
SVM RNA-class probability 0.728644
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9680942 112 + 20766785
AAAUUGUUAAUUUGGCGACAGUCUGGCAACUCCGCUGCUACUAAGUUAUAUUGCUCGCCAAAUUUAUAUUAUAUUUGUAUAACGGGCGAGAAGAGCAGGAGUAAUGCCAGCU
..((((((........))))))(((((((((((((((((....))).......((((((....((((((.......))))))..))))))...))).)))))..)))))).. ( -34.50)
>DroSec_CAF1 3383 111 + 1
AAAUUGUUAAUUGCGCGACAGUCUGGCAACUCCGCUGCAACUAAGUUAUAAUGCUCGCCAAAUUUAUAUUAUAUUUGUAUAACGGGCGAGAAGAGUA-UAGUAAUGCCAGCU
..((((((........))))))((((((((((.(((.......))).......((((((....((((((.......))))))..))))))..)))).-......)))))).. ( -26.41)
>DroSim_CAF1 3374 111 + 1
AAAUUGUUAAUUGCGCGACAGUCUGGCAACUCCGCUGCAGCUAAGUUAUAUUGCUCGCCAAAUUUAUAUUAUAUUUGUAUAACGGGCGAGAAUAGCA-UAGUAAUGCCAGCU
...((((((((((.....)))).))))))....((((((((((.(((((....((((((....((((((.......))))))..)))))).))))).-))))..)).)))). ( -30.30)
>DroEre_CAF1 3454 105 + 1
------UUAAUUUCGCGACAGUGUGGCAACUCCACUGCAUCUAAGUUAUAUUGCUCGCCAAAUUUAUAUUAUAUUUGUAUAACGGGCGAGGAGAGCA-CAUUAGUGCCAGCU
------........(((.(((((.(....)..))))))............((.((((((....((((((.......))))))..)))))).)).(((-(....))))..)). ( -28.20)
>DroYak_CAF1 3406 105 + 1
------UUAAUUUCGCGACAGUGUGGCAACUCCACUGCAACUAAGUUAUAUUGCUCGCCAAAUUUAUAUUAUAUUUGUAUAACGGGCGAGGAGAGCA-CAGUAGUGCCAGCU
------........(((.(((((.(....)..))))))............((.((((((....((((((.......))))))..)))))).)).(((-(....))))..)). ( -28.20)
>consensus
AAAUUGUUAAUUUCGCGACAGUCUGGCAACUCCGCUGCAACUAAGUUAUAUUGCUCGCCAAAUUUAUAUUAUAUUUGUAUAACGGGCGAGAAGAGCA_CAGUAAUGCCAGCU
...................(((.(((((.......(((...(((......)))((((((....((((((.......))))))..))))))....))).......)))))))) (-21.68 = -21.72 +   0.04)

alignment

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secondary structure

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dotplot

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Window 6

Location 9,680,942 – 9,681,054
Length 112
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 90.16
Mean single sequence MFE -26.82
Consensus MFE -19.44
Energy contribution -19.68
Covariance contribution 0.24
Combinations/Pair 1.09
Mean z-score -1.80
Structure conservation index 0.72
SVM decision value 0.09
SVM RNA-class probability 0.578827
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9680942 112 - 20766785
AGCUGGCAUUACUCCUGCUCUUCUCGCCCGUUAUACAAAUAUAAUAUAAAUUUGGCGAGCAAUAUAACUUAGUAGCAGCGGAGUUGCCAGACUGUCGCCAAAUUAACAAUUU
((((((((..(((((((((((.((((((..(((((.........)))))....))))))...........)).))))..))))))))))).))................... ( -29.70)
>DroSec_CAF1 3383 111 - 1
AGCUGGCAUUACUA-UACUCUUCUCGCCCGUUAUACAAAUAUAAUAUAAAUUUGGCGAGCAUUAUAACUUAGUUGCAGCGGAGUUGCCAGACUGUCGCGCAAUUAACAAUUU
..............-.......((((((..(((((.........)))))....)))))).........((((((((.((((((((....)))).))))))))))))...... ( -24.70)
>DroSim_CAF1 3374 111 - 1
AGCUGGCAUUACUA-UGCUAUUCUCGCCCGUUAUACAAAUAUAAUAUAAAUUUGGCGAGCAAUAUAACUUAGCUGCAGCGGAGUUGCCAGACUGUCGCGCAAUUAACAAUUU
(((((((((....)-)))((((((((((..(((((.........)))))....)))))).)))).....)))))((.((((((((....)))).))))))............ ( -28.40)
>DroEre_CAF1 3454 105 - 1
AGCUGGCACUAAUG-UGCUCUCCUCGCCCGUUAUACAAAUAUAAUAUAAAUUUGGCGAGCAAUAUAACUUAGAUGCAGUGGAGUUGCCACACUGUCGCGAAAUUAA------
.((.(((((....)-))))...((((((..(((((.........)))))....))))))...............((((((.........)))))).))........------ ( -24.60)
>DroYak_CAF1 3406 105 - 1
AGCUGGCACUACUG-UGCUCUCCUCGCCCGUUAUACAAAUAUAAUAUAAAUUUGGCGAGCAAUAUAACUUAGUUGCAGUGGAGUUGCCACACUGUCGCGAAAUUAA------
.((.((((....((-(((.(((((((((..(((((.........)))))....)))))(((((........)))))...))))..).)))).))))))........------ ( -26.70)
>consensus
AGCUGGCAUUACUA_UGCUCUUCUCGCCCGUUAUACAAAUAUAAUAUAAAUUUGGCGAGCAAUAUAACUUAGUUGCAGCGGAGUUGCCAGACUGUCGCGAAAUUAACAAUUU
..(((((...............((((((..(((((.........)))))....))))))......(((((.((....)).))))))))))...................... (-19.44 = -19.68 +   0.24)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:51 2006