Locus 7442

Sequence ID 3L_DroMel_CAF1
Location 19,994,208 – 19,994,352
Length 144
Max. P 0.953149
window12089 window12090 window12091

overview

Window 9

Location 19,994,208 – 19,994,312
Length 104
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 95.45
Mean single sequence MFE -28.77
Consensus MFE -26.67
Energy contribution -26.23
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -2.62
Structure conservation index 0.93
SVM decision value 1.43
SVM RNA-class probability 0.953149
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19994208 104 - 23771897
AUAUCUAUAUGUAUACAAUAUAUAUUUUAUGGAUGGUGUAUGUGGUGUGUAAGUGGGUGUGUUAAUGGAGUGUGCCGAGGGCAGAACUGCCGCUUUAUACUGCU
((((((((.(((((((.(((((((((........))))))))).))))))).))))))))......(.((((((..(((((((....)))).))))))))).). ( -30.20)
>DroSec_CAF1 84082 100 - 1
AUA---GUAUAUAUAC-AUAUAUAUUUUAUGGAUGGUGUAUGUGGUGUGUAAGUGGGUGUGCUAAUGGAGUGUGCCGAGGGCAGAACUGCCGCUUUAUACUGCU
...---((((((...(-(((.......))))....))))))(..(((((.((((.((((..((.....))..))))...((((....)))))))))))))..). ( -29.50)
>DroSim_CAF1 42812 100 - 1
AUA---GUAUAUAUAC-AUAUAUAUUUUAUGGAUGGUGUAUGUGGUGUGUAAGUGGGUGUGUUAAUGGAGUGUGCCGAGGGCAGAACUGCCGCUUUAUACUGCU
...---((((((...(-(((.......))))....))))))(..(((((.((((.((((..((.....))..))))...((((....)))))))))))))..). ( -26.60)
>consensus
AUA___GUAUAUAUAC_AUAUAUAUUUUAUGGAUGGUGUAUGUGGUGUGUAAGUGGGUGUGUUAAUGGAGUGUGCCGAGGGCAGAACUGCCGCUUUAUACUGCU
..........((((((..((((.....))))....))))))(..(((((.((((.((((..((.....))..))))...((((....)))))))))))))..). (-26.67 = -26.23 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,994,247 – 19,994,352
Length 105
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 92.93
Mean single sequence MFE -11.40
Consensus MFE -11.20
Energy contribution -11.87
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.98
SVM decision value 1.07
SVM RNA-class probability 0.910019
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19994247 105 + 23771897
UUAACACACCCACUUACACACCACAUACACCAUCCAUAAAAUAUAUAUUGUAUACAUAUAGAUAUAUGUACAAACAUCUGAUAUCAAUGACUUUUGUAGCUGUUU
.....................((..((((.....(((...((((....(((.(((((((....)))))))...)))....))))..))).....))))..))... (  -8.50)
>DroSec_CAF1 84121 101 + 1
UUAGCACACCCACUUACACACCACAUACACCAUCCAUAAAAUAUAUAU-GUAUAUAUAC---UAUAUGUACACUCAACUGAUAUCAAUGACUUGUGUAGCUGUUU
.((((((((......................................(-((((((((..---.))))))))).(((..((....)).)))...)))).))))... ( -12.90)
>DroSim_CAF1 42851 101 + 1
UUAACACACCCACUUACACACCACAUACACCAUCCAUAAAAUAUAUAU-GUAUAUAUAC---UAUAUGUACACACAACUGAUAUCAAUGACUUGUGUAGCUGUUU
..........((.(((((((...(((.....................(-((((((((..---.)))))))))......((....)))))...))))))).))... ( -12.80)
>consensus
UUAACACACCCACUUACACACCACAUACACCAUCCAUAAAAUAUAUAU_GUAUAUAUAC___UAUAUGUACACACAACUGAUAUCAAUGACUUGUGUAGCUGUUU
..........((.(((((((...(((.......................(((((((((....))))))))).......((....)))))...))))))).))... (-11.20 = -11.87 +   0.67)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,994,247 – 19,994,352
Length 105
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 92.93
Mean single sequence MFE -24.87
Consensus MFE -20.02
Energy contribution -19.80
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.60
Structure conservation index 0.81
SVM decision value 0.49
SVM RNA-class probability 0.754995
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19994247 105 - 23771897
AAACAGCUACAAAAGUCAUUGAUAUCAGAUGUUUGUACAUAUAUCUAUAUGUAUACAAUAUAUAUUUUAUGGAUGGUGUAUGUGGUGUGUAAGUGGGUGUGUUAA
.....(.((((((.(((..((....))))).)))))))((((((((((.(((((((.(((((((((........))))))))).))))))).))))))))))... ( -24.00)
>DroSec_CAF1 84121 101 - 1
AAACAGCUACACAAGUCAUUGAUAUCAGUUGAGUGUACAUAUA---GUAUAUAUAC-AUAUAUAUUUUAUGGAUGGUGUAUGUGGUGUGUAAGUGGGUGUGCUAA
..(((.(((((((..((((((....))).))).)))..(((((---.(((((((((-.((((.....))))....))))))))).)))))..)))).)))..... ( -25.40)
>DroSim_CAF1 42851 101 - 1
AAACAGCUACACAAGUCAUUGAUAUCAGUUGUGUGUACAUAUA---GUAUAUAUAC-AUAUAUAUUUUAUGGAUGGUGUAUGUGGUGUGUAAGUGGGUGUGUUAA
..(((.(((((((..((((..((((((..(((((((((.....---)))))))))(-(((.......))))..))))))..))))..)))..)))).)))..... ( -25.20)
>consensus
AAACAGCUACACAAGUCAUUGAUAUCAGUUGUGUGUACAUAUA___GUAUAUAUAC_AUAUAUAUUUUAUGGAUGGUGUAUGUGGUGUGUAAGUGGGUGUGUUAA
..(((.((((......(((((....))).))....(((((((.....(((((((((..((((.....))))....)))))))))))))))).)))).)))..... (-20.02 = -19.80 +  -0.22)

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 12:47:10 2006