Locus 1253

Sequence ID 2R_DroMel_CAF1
Location 4,902,741 – 4,902,873
Length 132
Max. P 0.939931
window2170 window2171

overview

Window 0

Location 4,902,741 – 4,902,849
Length 108
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 81.93
Mean single sequence MFE -27.04
Consensus MFE -20.60
Energy contribution -20.68
Covariance contribution 0.08
Combinations/Pair 1.19
Mean z-score -2.18
Structure conservation index 0.76
SVM decision value 1.30
SVM RNA-class probability 0.939931
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4902741 108 - 20766785
CCAAGGGUCUAUAGAGGUCCGUUGAGUCCAAUGUUUUUCUGUAACCCUUACGAAAUAUAGGUAUGGUAUACCUGUAUUUGUUGAAUAAUCGUGAAA-------AGGUGUAAAAAA
((..((((.((((((((..(((((....)))))..))))))))))))(((((((((((((((((...)))))))))))..........))))))..-------.))......... ( -33.00)
>DroSec_CAF1 35902 108 - 1
CCAAGGGUCUAUAAAGAUCCGUUGAGUCCAAUGUUUUCUUGCAACCCUUACGAAAUAUAGGUAUGGUAUACCUGUUUUUAUUAAACAAGUGUCAAA-------AGGUCUAAAAAU
((((((((.....((((..(((((....)))))...))))...))))))...(((.((((((((...)))))))).))).................-------.))......... ( -21.80)
>DroSim_CAF1 54605 108 - 1
CCAAGGGUCUAUAAAGAUCCGUUGAGUCCAAUGUUUUCUUGUAACCCUUACGAAAUAUAGGUAUGGUAUACCUGUAUUUAUUGAUUAAUGGUCAAA-------AGGUCUAAAAAU
((((((((.(((((..(..(((((....)))))..)..)))))))))))...((((((((((((...)))))))))))).(((((.....))))).-------.))......... ( -30.30)
>DroEre_CAF1 50528 103 - 1
CCAAGGGUCUAUAAAGGUCGUUUGAGUCCAAGGUUUUUUUGUAACCCUUUCGAAAUAUGGGUAUAGUAUACCUGUUUU-GAUGCAUUAUUGUUGAG----------UC-ACAAAU
..((((((.((((((((...((((....))))...))))))))))))))(((((((..((((((...)))))))))))-)).......((((....----------..-)))).. ( -21.30)
>DroYak_CAF1 55152 114 - 1
CCAAGGGUCUAUAAAGGUCGUUUGAGUCCAAUGUUUUUUUGUAGCCCUUUCGAAAUAUAGGUACGGUAUACCUGUUUU-GUUGAAUUAUUGUUCAAUUAUUGUAAGUCAACAAAU
..(((((.(((((((((....(((....)))....)))))))))))))).......(((((((.....)))))))(((-(((((.((((.((......)).)))).)))))))). ( -28.80)
>consensus
CCAAGGGUCUAUAAAGGUCCGUUGAGUCCAAUGUUUUUUUGUAACCCUUACGAAAUAUAGGUAUGGUAUACCUGUUUUUGUUGAAUAAUUGUCAAA_______AGGUCUAAAAAU
..((((((.((((((((..(((((....)))))..)))))))))))))).......(((((((.....)))))))........................................ (-20.60 = -20.68 +   0.08)

alignment

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secondary structure

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dotplot

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Window 1

Location 4,902,774 – 4,902,873
Length 99
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 92.63
Mean single sequence MFE -22.56
Consensus MFE -20.26
Energy contribution -20.34
Covariance contribution 0.08
Combinations/Pair 1.19
Mean z-score -1.45
Structure conservation index 0.90
SVM decision value 1.08
SVM RNA-class probability 0.911266
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4902774 99 - 20766785
AUUUCUUACCCGACUUUUGCUCCUCCAAGGGUCUAUAGAGGUCCGUUGAGUCCAAUGUUUUUCUGUAACCCUUACGAAAUAUAGGUAUGGUAUACCUGU
(((((......((((((((......))))))))((((((((..(((((....)))))..))))))))........)))))((((((((...)))))))) ( -27.50)
>DroSec_CAF1 35935 99 - 1
ACUUCUUACCCGACUUUUGCUCCUCCAAGGGUCUAUAAAGAUCCGUUGAGUCCAAUGUUUUCUUGCAACCCUUACGAAAUAUAGGUAUGGUAUACCUGU
..........................((((((.....((((..(((((....)))))...))))...)))))).......((((((((...)))))))) ( -19.40)
>DroSim_CAF1 54638 99 - 1
ACUUCUUACCCGACUUUUGCUCCUCCAAGGGUCUAUAAAGAUCCGUUGAGUCCAAUGUUUUCUUGUAACCCUUACGAAAUAUAGGUAUGGUAUACCUGU
..........................((((((.(((((..(..(((((....)))))..)..))))))))))).......((((((((...)))))))) ( -22.00)
>DroEre_CAF1 50556 99 - 1
ACUUCUUACCCGACUUCUGCUCCUCCAAGGGUCUAUAAAGGUCGUUUGAGUCCAAGGUUUUUUUGUAACCCUUUCGAAAUAUGGGUAUAGUAUACCUGU
....((((..((((((.((..(((....)))....)).))))))..))))....((((....(((((.(((...........))))))))...)))).. ( -20.60)
>DroYak_CAF1 55191 99 - 1
ACUUCUUACCCGACUUAUGCUCCUCCAAGGGUCUAUAAAGGUCGUUUGAGUCCAAUGUUUUUUUGUAGCCCUUUCGAAAUAUAGGUACGGUAUACCUGU
.........((((((((((.......(((((.(((((((((....(((....)))....))))))))))))))......))))))).)))......... ( -23.32)
>consensus
ACUUCUUACCCGACUUUUGCUCCUCCAAGGGUCUAUAAAGGUCCGUUGAGUCCAAUGUUUUUUUGUAACCCUUACGAAAUAUAGGUAUGGUAUACCUGU
..........................((((((.((((((((..(((((....)))))..)))))))))))))).......(((((((.....))))))) (-20.26 = -20.34 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:06 2006