Locus 5119

Sequence ID 3R_DroMel_CAF1
Location 13,482,720 – 13,482,813
Length 93
Max. P 0.924687
window8350 window8351

overview

Window 0

Location 13,482,720 – 13,482,813
Length 93
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 82.92
Mean single sequence MFE -25.08
Consensus MFE -17.86
Energy contribution -18.17
Covariance contribution 0.31
Combinations/Pair 1.29
Mean z-score -3.53
Structure conservation index 0.71
SVM decision value 1.16
SVM RNA-class probability 0.924687
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13482720 93 + 27905053
CAAACAAAAAUCCAAGCCAAAAAUAGCCACCAAAC--GAGCUGAAGUUGACCACAACUUGCCUUUCUCUUGGCCAAAUGUUAAUUUGGCUUGGCU
...........((((((((((..(((((.......--).))))((((((....))))))(((........)))..........)))))))))).. ( -25.50)
>DroSec_CAF1 32694 93 + 1
CCAACAAAAAUCGAAGCCGAAAAUAGCCACCAAAC--GAGCUGAAGUUGACCACAACUUGCCUUUCUCUUGGCCAAAUGUUAAUUUGGCUUCGCU
...........((((((((((..(((((.......--).))))((((((....))))))(((........)))..........)))))))))).. ( -24.60)
>DroSim_CAF1 31572 93 + 1
CCAACAAAAAACCAAGCCGAAAAUAGCCACCAAAC--GAGCUGAAGUUGACCACAACUUGCCUUUCUCUUGGCCAAAUGUUAAUUUGGCUUGGCU
...........((((((((((..(((((.......--).))))((((((....))))))(((........)))..........)))))))))).. ( -25.60)
>DroEre_CAF1 29086 93 + 1
CCAACACAAUUCCAAGCCAAAUAUAGCUACCAAAC--GAGCAGAAGCUGACCACAGCUGGCCUUUCUCUUGGCCAACUGUUAAUUUGGCUUGGCU
...........(((((((((((.(((((.......--.......)))))...((((.(((((........))))).))))..))))))))))).. ( -33.04)
>DroYak_CAF1 37116 93 + 1
UCAACACAAAUCCAAGCCGAAAAUAGCUACCAAAC--AAGCAGAAGUUGACCACAACUGGCCUUUCUCUUGGCCAAAUGUUAAUUUGGCUUGGCU
...........((((((((((....(((.......--.)))...(((((....)))))((((........)))).........)))))))))).. ( -28.50)
>DroAna_CAF1 34017 89 + 1
UUGCCAAAAGACAGAGUCCA-AUUAAAUACCAAAGCUUACCAUUUGCUGACCACAACUUGC-----UUUUGGCCAAAUGUUAAUUUAGCUUGUCU
..((((((((...((((...-............(((.........))).......)))).)-----)))))))...................... ( -13.25)
>consensus
CCAACAAAAAUCCAAGCCGAAAAUAGCCACCAAAC__GAGCAGAAGUUGACCACAACUUGCCUUUCUCUUGGCCAAAUGUUAAUUUGGCUUGGCU
...........(((((((((...((((.................(((((....))))).(((........))).....))))..))))))))).. (-17.86 = -18.17 +   0.31)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,482,720 – 13,482,813
Length 93
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 82.92
Mean single sequence MFE -29.42
Consensus MFE -19.54
Energy contribution -19.85
Covariance contribution 0.31
Combinations/Pair 1.23
Mean z-score -2.56
Structure conservation index 0.66
SVM decision value 0.50
SVM RNA-class probability 0.760533
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13482720 93 - 27905053
AGCCAAGCCAAAUUAACAUUUGGCCAAGAGAAAGGCAAGUUGUGGUCAACUUCAGCUC--GUUUGGUGGCUAUUUUUGGCUUGGAUUUUUGUUUG
..((((((((((........((((((..(((..(((((((((....))))))..))).--.)))..))))))..))))))))))........... ( -32.90)
>DroSec_CAF1 32694 93 - 1
AGCGAAGCCAAAUUAACAUUUGGCCAAGAGAAAGGCAAGUUGUGGUCAACUUCAGCUC--GUUUGGUGGCUAUUUUCGGCUUCGAUUUUUGUUGG
..((((((((((........((((((..(((..(((((((((....))))))..))).--.)))..)))))).))).)))))))........... ( -28.60)
>DroSim_CAF1 31572 93 - 1
AGCCAAGCCAAAUUAACAUUUGGCCAAGAGAAAGGCAAGUUGUGGUCAACUUCAGCUC--GUUUGGUGGCUAUUUUCGGCUUGGUUUUUUGUUGG
((((((((((((........((((((..(((..(((((((((....))))))..))).--.)))..)))))).))).)))))))))......... ( -30.60)
>DroEre_CAF1 29086 93 - 1
AGCCAAGCCAAAUUAACAGUUGGCCAAGAGAAAGGCCAGCUGUGGUCAGCUUCUGCUC--GUUUGGUAGCUAUAUUUGGCUUGGAAUUGUGUUGG
..(((((((((((..((((((((((........))))))))))....((((.((....--....)).))))..)))))))))))........... ( -38.80)
>DroYak_CAF1 37116 93 - 1
AGCCAAGCCAAAUUAACAUUUGGCCAAGAGAAAGGCCAGUUGUGGUCAACUUCUGCUU--GUUUGGUAGCUAUUUUCGGCUUGGAUUUGUGUUGA
..(((((((......(((.((((((........)))))).))).........(((((.--....)))))........)))))))........... ( -28.90)
>DroAna_CAF1 34017 89 - 1
AGACAAGCUAAAUUAACAUUUGGCCAAAA-----GCAAGUUGUGGUCAGCAAAUGGUAAGCUUUGGUAUUUAAU-UGGACUCUGUCUUUUGGCAA
......................(((((((-----(((.((((....))))........((.((..((.....))-..)))).)).)))))))).. ( -16.70)
>consensus
AGCCAAGCCAAAUUAACAUUUGGCCAAGAGAAAGGCAAGUUGUGGUCAACUUCAGCUC__GUUUGGUAGCUAUUUUCGGCUUGGAUUUUUGUUGG
..(((((((.......(....)((((((.....(((.(((((....)))))...)))....))))))..........)))))))........... (-19.54 = -19.85 +   0.31)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:45 2006