Locus 7217

Sequence ID 2L_DroMel_CAF1
Location 20,252,848 – 20,253,088
Length 240
Max. P 0.992737
window11540 window11541 window11542 window11543

overview

Window 0

Location 20,252,848 – 20,252,968
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.08
Mean single sequence MFE -38.87
Consensus MFE -37.65
Energy contribution -37.77
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -3.46
Structure conservation index 0.97
SVM decision value 2.30
SVM RNA-class probability 0.991997
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20252848 120 + 22407834
AGCGUGACAAUGUUUGUCGUCAAGUGUCGCAGACUCAUCGCUGAUAAUUGUUACGAUUAUCCACGCCCAUGCCAUCAUCAUGGCCUCGACGACAUCAUUAUCGCAGAACGCCCAGUUCCA
...((((.((((..(((((((..(((..((.((....)))).((((((((...)))))))))))......(((((....)))))...))))))).)))).)))).((((.....)))).. ( -35.60)
>DroSec_CAF1 14369 117 + 1
AGCGUGACAAUGUUUGUCGUCAAGUGUCGCAGCCUCAUCGCUGAUAAUUGUUACGAUUAUCCACGCCCAUGCCAU---CAUGGCCACGACGACAUCAUUAUCACGGAACGCCCAGUUCCA
...((((.((((..(((((((..(((....(((......)))((((((((...)))))))))))(.(((((....---))))).)..))))))).)))).))))(((((.....))))). ( -41.30)
>DroSim_CAF1 12784 117 + 1
AGCGUGACAAUGUUUGUCGUCAAGUGUCGCAGACUCAUCGCUGAUAAUUGUUACGAUUAUCCACGCCCAUGCCAU---CAUGGCCUCGACGACAUCAUUAUCACGGAACGCCCAGUUCCA
...((((.((((..(((((((..(((..((.((....)))).((((((((...)))))))))))(.(((((....---))))).)..))))))).)))).))))(((((.....))))). ( -39.70)
>consensus
AGCGUGACAAUGUUUGUCGUCAAGUGUCGCAGACUCAUCGCUGAUAAUUGUUACGAUUAUCCACGCCCAUGCCAU___CAUGGCCUCGACGACAUCAUUAUCACGGAACGCCCAGUUCCA
...((((.((((..(((((((..(((..((.........)).((((((((...)))))))))))......(((((....)))))...))))))).)))).))))(((((.....))))). (-37.65 = -37.77 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,252,848 – 20,252,968
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.08
Mean single sequence MFE -47.87
Consensus MFE -47.09
Energy contribution -47.87
Covariance contribution 0.78
Combinations/Pair 1.02
Mean z-score -3.98
Structure conservation index 0.98
SVM decision value 2.35
SVM RNA-class probability 0.992737
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20252848 120 - 22407834
UGGAACUGGGCGUUCUGCGAUAAUGAUGUCGUCGAGGCCAUGAUGAUGGCAUGGGCGUGGAUAAUCGUAACAAUUAUCAGCGAUGAGUCUGCGACACUUGACGACAAACAUUGUCACGCU
.(((((.....)))))(.(((((((.(((((((((((((((....))))).((..((..(((.(((((...........)))))..)))..)).))))))))))))..))))))).)... ( -46.40)
>DroSec_CAF1 14369 117 - 1
UGGAACUGGGCGUUCCGUGAUAAUGAUGUCGUCGUGGCCAUG---AUGGCAUGGGCGUGGAUAAUCGUAACAAUUAUCAGCGAUGAGGCUGCGACACUUGACGACAAACAUUGUCACGCU
.(((((.....)))))(((((((((.((((((((((.(((((---....))))).((..(...(((((...........)))))....)..)).)))..)))))))..)))))))))... ( -45.70)
>DroSim_CAF1 12784 117 - 1
UGGAACUGGGCGUUCCGUGAUAAUGAUGUCGUCGAGGCCAUG---AUGGCAUGGGCGUGGAUAAUCGUAACAAUUAUCAGCGAUGAGUCUGCGACACUUGACGACAAACAUUGUCACGCU
.(((((.....)))))(((((((((.((((((((((.(((((---....))))).((..(((.(((((...........)))))..)))..))...))))))))))..)))))))))... ( -51.50)
>consensus
UGGAACUGGGCGUUCCGUGAUAAUGAUGUCGUCGAGGCCAUG___AUGGCAUGGGCGUGGAUAAUCGUAACAAUUAUCAGCGAUGAGUCUGCGACACUUGACGACAAACAUUGUCACGCU
.(((((.....)))))(((((((((.(((((((((((((((....))))).((..((..(((.(((((...........)))))..)))..)).))))))))))))..)))))))))... (-47.09 = -47.87 +   0.78)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,252,968 – 20,253,088
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -37.43
Consensus MFE -31.49
Energy contribution -31.60
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.25
Structure conservation index 0.84
SVM decision value 0.20
SVM RNA-class probability 0.629048
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20252968 120 + 22407834
CUUCGAAUUUAGUGGGAGUUGUGUGUGAGGGGUAAAUCCAUUCGACCUAUUCCUUACACUAAUGAUUUAAUUAUGUUCCCGCUGCGAUUGUCGAGUGGGGAUCAAAUCACAUUGACAAAG
..(((....(((((((((....((((((((((((..((.....))..))))))))))))((((......))))..))))))))))))(((((((((((........)))).))))))).. ( -38.50)
>DroSec_CAF1 14486 120 + 1
CUUCGAAUUUAGUGUGAGUUGUGUGCGAGGGGUAAAUCCAUUCGACCUAUUCCUUACACUCAUGAUUUAAUUAUGUUCCCGCUGCGAUUGUCGAGUGGGGAUCAAAUCACGAUGACGAAG
(((((......(((((((..(((.(((((.((.....)).)))).).)))..)))))))((.((((((......(((((((((.((.....))))))))))).)))))).))...))))) ( -38.60)
>DroSim_CAF1 12901 120 + 1
CUUCGAAUUUAGUGUGAGUUGUGUGCGAGGGGUAAAUCCAUUCGACCUAUUCCUUACACUCAUGAUUUAAUUAUGUUCCCGCUGCGAUUGUCGAGUGGGGAUCAAAUCACGAUGACAAAG
..(((.....((((((((..(((.(((((.((.....)).)))).).)))..))))))))..((((((......(((((((((.((.....))))))))))).)))))))))........ ( -35.20)
>consensus
CUUCGAAUUUAGUGUGAGUUGUGUGCGAGGGGUAAAUCCAUUCGACCUAUUCCUUACACUCAUGAUUUAAUUAUGUUCCCGCUGCGAUUGUCGAGUGGGGAUCAAAUCACGAUGACAAAG
..........((((((((..(((.(((((.((.....)).)))).).)))..))))))))..((((((......(((((((((.((.....))))))))))).))))))........... (-31.49 = -31.60 +   0.11)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,252,968 – 20,253,088
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -32.13
Consensus MFE -31.34
Energy contribution -31.57
Covariance contribution 0.23
Combinations/Pair 1.05
Mean z-score -2.58
Structure conservation index 0.98
SVM decision value 1.78
SVM RNA-class probability 0.976721
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20252968 120 - 22407834
CUUUGUCAAUGUGAUUUGAUCCCCACUCGACAAUCGCAGCGGGAACAUAAUUAAAUCAUUAGUGUAAGGAAUAGGUCGAAUGGAUUUACCCCUCACACACAACUCCCACUAAAUUCGAAG
(((((.....((((((((((.(((.((((.....)).)).)))......))))))))))..((((.(((..((((((.....))))))..))).)))).................))))) ( -27.70)
>DroSec_CAF1 14486 120 - 1
CUUCGUCAUCGUGAUUUGAUCCCCACUCGACAAUCGCAGCGGGAACAUAAUUAAAUCAUGAGUGUAAGGAAUAGGUCGAAUGGAUUUACCCCUCGCACACAACUCACACUAAAUUCGAAG
(((((...((((((((((((.(((.((((.....)).)).)))......))))))))))))(((..(((..((((((.....))))))..)))..))).................))))) ( -35.40)
>DroSim_CAF1 12901 120 - 1
CUUUGUCAUCGUGAUUUGAUCCCCACUCGACAAUCGCAGCGGGAACAUAAUUAAAUCAUGAGUGUAAGGAAUAGGUCGAAUGGAUUUACCCCUCGCACACAACUCACACUAAAUUCGAAG
(((((...((((((((((((.(((.((((.....)).)).)))......))))))))))))(((..(((..((((((.....))))))..)))..))).................))))) ( -33.30)
>consensus
CUUUGUCAUCGUGAUUUGAUCCCCACUCGACAAUCGCAGCGGGAACAUAAUUAAAUCAUGAGUGUAAGGAAUAGGUCGAAUGGAUUUACCCCUCGCACACAACUCACACUAAAUUCGAAG
(((((...((((((((((((.(((.((((.....)).)).)))......))))))))))))((((.(((..((((((.....))))))..))).)))).................))))) (-31.34 = -31.57 +   0.23)

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 12:30:35 2006