Locus 5819

Sequence ID 2L_DroMel_CAF1
Location 16,488,294 – 16,488,406
Length 112
Max. P 0.987362
window9236 window9237

overview

Window 6

Location 16,488,294 – 16,488,406
Length 112
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 77.42
Mean single sequence MFE -27.10
Consensus MFE -15.04
Energy contribution -15.10
Covariance contribution 0.06
Combinations/Pair 1.21
Mean z-score -2.73
Structure conservation index 0.55
SVM decision value 2.08
SVM RNA-class probability 0.987362
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16488294 112 + 22407834
CAAUAAGAACGGCUAGUUGAAAACAUAUAAACUGCAGUCAAUGCCAAACUGUGCGAUAACAGUUAUGUACAUACAUACAUAGGUGUUAAAGUUUUUGUUUGCAUUUCGGUUU
......((((((((((((...........))))..))))(((((.((((...((..(((((.(((((((......))))))).)))))..))....)))))))))...)))) ( -25.00)
>DroSec_CAF1 398 108 + 1
CAAUAAGAACGGCUAGUUGCAAACAUAUAAACUGCAGUCAAUGCCAAACUGUGUGAUAACAGCUAUGUACAU----ACAUAGGUGUUAAAGUUUUUGUUUGCAUUUCGGUUU
......((((.(.....((((((((...((((((((((.........)))))....(((((.((((((....----)))))).))))).))))).))))))))...).)))) ( -30.20)
>DroSim_CAF1 418 108 + 1
CAAUAAGAACGGCUAGUUGCAAACAUAUAAACUGCAGUCAAUGCCAAACUGUGCGAUAACAGCUAUGUACAU----ACAUAGGUGUUAAAGUUUUUGUUUGCAUUUUGGUUU
..........((((((.((((((((...((((((((((.........)))))....(((((.((((((....----)))))).))))).))))).))))))))..)))))). ( -31.80)
>DroYak_CAF1 634 87 + 1
--------------------AUUAAAACAACUGCAAAUCAAUGUCAAACUGUGCGAUAACAGCUACUUACAU----AUGUAGGUG-UUAAGAGUUUGUUUGCAUUGCUGUUU
--------------------............(((...(((((.(((((...((..(((((.((((......----..)))).))-)))...))..)))))))))).))).. ( -21.40)
>consensus
CAAUAAGAACGGCUAGUUGCAAACAUAUAAACUGCAGUCAAUGCCAAACUGUGCGAUAACAGCUAUGUACAU____ACAUAGGUGUUAAAGUUUUUGUUUGCAUUUCGGUUU
............................((((((.....((((.(((((...((..(((((.((((((........)))))).)))))..))....))))))))).)))))) (-15.04 = -15.10 +   0.06)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 16,488,294 – 16,488,406
Length 112
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 77.42
Mean single sequence MFE -22.35
Consensus MFE -12.34
Energy contribution -12.96
Covariance contribution 0.62
Combinations/Pair 1.05
Mean z-score -2.09
Structure conservation index 0.55
SVM decision value 0.50
SVM RNA-class probability 0.761804
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16488294 112 - 22407834
AAACCGAAAUGCAAACAAAAACUUUAACACCUAUGUAUGUAUGUACAUAACUGUUAUCGCACAGUUUGGCAUUGACUGCAGUUUAUAUGUUUUCAACUAGCCGUUCUUAUUG
.......((((..(((..(((((.(((((..(((((((....)))))))..)))))......)))))(((.((((..(((.......)))..))))...))))))..)))). ( -20.50)
>DroSec_CAF1 398 108 - 1
AAACCGAAAUGCAAACAAAAACUUUAACACCUAUGU----AUGUACAUAGCUGUUAUCACACAGUUUGGCAUUGACUGCAGUUUAUAUGUUUGCAACUAGCCGUUCUUAUUG
.........((((((((.(((((.(((((.((((((----....)))))).))))).....(((((.......))))).)))))...))))))))................. ( -24.50)
>DroSim_CAF1 418 108 - 1
AAACCAAAAUGCAAACAAAAACUUUAACACCUAUGU----AUGUACAUAGCUGUUAUCGCACAGUUUGGCAUUGACUGCAGUUUAUAUGUUUGCAACUAGCCGUUCUUAUUG
.........((((((((.(((((.(((((.((((((----....)))))).))))).....(((((.......))))).)))))...))))))))................. ( -24.50)
>DroYak_CAF1 634 87 - 1
AAACAGCAAUGCAAACAAACUCUUAA-CACCUACAU----AUGUAAGUAGCUGUUAUCGCACAGUUUGACAUUGAUUUGCAGUUGUUUUAAU--------------------
(((((((..((((((((((((..(((-((.((((..----......)))).)))))......)))))).......)))))))))))))....-------------------- ( -19.91)
>consensus
AAACCGAAAUGCAAACAAAAACUUUAACACCUAUGU____AUGUACAUAGCUGUUAUCGCACAGUUUGGCAUUGACUGCAGUUUAUAUGUUUGCAACUAGCCGUUCUUAUUG
.......(((((((((........(((((.((((((........)))))).))))).......))))).))))....................................... (-12.34 = -12.96 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:48 2006