Locus 2897

Sequence ID 3L_DroMel_CAF1
Location 8,278,002 – 8,278,102
Length 100
Max. P 0.612386
window4525 window4526

overview

Window 5

Location 8,278,002 – 8,278,102
Length 100
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 80.27
Mean single sequence MFE -26.43
Consensus MFE -15.22
Energy contribution -16.38
Covariance contribution 1.16
Combinations/Pair 1.18
Mean z-score -1.86
Structure conservation index 0.58
SVM decision value 0.16
SVM RNA-class probability 0.612386
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8278002 100 + 23771897
UGCUGCGGUUCUUGAUUUUAUUAAUUAC-----GUUGUUGUACCGCGCUGAUUCUUCGCAUUCAUGUGUGGUGAAAAAGCGAUUUCACCAUUUACCGCGACGACC
.(.((((((...(((((.....)))))(-----(((....(((((((((((..........))).))))))))....))))............)))))).).... ( -25.50)
>DroSec_CAF1 12939 105 + 1
UUCUCGGGUUCCCCCUUUUAUAAAUUACCUACAGUUGUUGCACAGCACUGAUUCUUCUCUUUCAGGUGUGGUGAAAAAGCGAUUUCACCAUUUACCGCGACGACC
.....(((....)))..................((((((((...((.((((..........))))))(((((((((......))))))))).....)))))))). ( -28.80)
>DroSim_CAF1 14143 105 + 1
UUCUCGGGUUCCACCUUUUAUAAAUUACCUACAGUUGUUGUACAGCACUGAUUCUUCUCUUUCAGGUGUGGUGAAAAAGCGAUUUCACCAUUUACCGCGACGACC
.....((((.................))))...((((((((...((.((((..........))))))(((((((((......))))))))).....)))))))). ( -24.73)
>DroEre_CAF1 18172 104 + 1
UUUC-GGGUUUCCGCUUUUAUUGUCUAGCCUCAUUUGUUGUACAGCACUGCUUCUUCGCUCUGAGGUAUGGUGAAAACGCAAUUUCACCAUCUGCCCCGACUACC
..((-(((...................((((((..((((....))))..((......))..))))))(((((((((......)))))))))....)))))..... ( -27.70)
>DroYak_CAF1 13479 104 + 1
UUCU-GGGUUUCCCCUUUUAUUGUCUAGCUGCAGUUGUUUUACAGCACUGCUUCUUCGCUUACAGGUGUGGUAAAAACGCGAGUUCACCAUUUGCCGCCACUACC
....-(((....))).......((..((..(((((.((......)))))))..))..)).....((((((((((((((....))).....))))))).))))... ( -25.40)
>consensus
UUCU_GGGUUCCCCCUUUUAUUAAUUACCUACAGUUGUUGUACAGCACUGAUUCUUCGCUUUCAGGUGUGGUGAAAAAGCGAUUUCACCAUUUACCGCGACGACC
.................................((((((((........((......)).....((((((((((((......)))))))))..))))))))))). (-15.22 = -16.38 +   1.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 8,278,002 – 8,278,102
Length 100
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 80.27
Mean single sequence MFE -27.82
Consensus MFE -15.68
Energy contribution -16.48
Covariance contribution 0.80
Combinations/Pair 1.22
Mean z-score -1.83
Structure conservation index 0.56
SVM decision value 0.02
SVM RNA-class probability 0.545970
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8278002 100 - 23771897
GGUCGUCGCGGUAAAUGGUGAAAUCGCUUUUUCACCACACAUGAAUGCGAAGAAUCAGCGCGGUACAACAAC-----GUAAUUAAUAAAAUCAAGAACCGCAGCA
((((.(((((.....((((((((......))))))))........))))).).))).(((((((.(......-----.................).))))).)). ( -24.92)
>DroSec_CAF1 12939 105 - 1
GGUCGUCGCGGUAAAUGGUGAAAUCGCUUUUUCACCACACCUGAAAGAGAAGAAUCAGUGCUGUGCAACAACUGUAGGUAAUUUAUAAAAGGGGGAACCCGAGAA
.((.(.(((((((..((((((((......))))))))...((((..........)))))))))))).)).....................(((....)))..... ( -27.20)
>DroSim_CAF1 14143 105 - 1
GGUCGUCGCGGUAAAUGGUGAAAUCGCUUUUUCACCACACCUGAAAGAGAAGAAUCAGUGCUGUACAACAACUGUAGGUAAUUUAUAAAAGGUGGAACCCGAGAA
..((.(((.(((...((((((((......))))))))(((((....((......))..((((.((((.....)))))))).........)))))..)))))))). ( -27.60)
>DroEre_CAF1 18172 104 - 1
GGUAGUCGGGGCAGAUGGUGAAAUUGCGUUUUCACCAUACCUCAGAGCGAAGAAGCAGUGCUGUACAACAAAUGAGGCUAGACAAUAAAAGCGGAAACCC-GAAA
.....(((((....(((((((((......))))))))).(((((..((......)).((........))...)))))....................)))-)).. ( -29.20)
>DroYak_CAF1 13479 104 - 1
GGUAGUGGCGGCAAAUGGUGAACUCGCGUUUUUACCACACCUGUAAGCGAAGAAGCAGUGCUGUAAAACAACUGCAGCUAGACAAUAAAAGGGGAAACCC-AGAA
(((.((((..(.(((((.((....))))))))..)))))))(((..((......))...((((((.......))))))...)))......(((....)))-.... ( -30.20)
>consensus
GGUCGUCGCGGUAAAUGGUGAAAUCGCUUUUUCACCACACCUGAAAGCGAAGAAUCAGUGCUGUACAACAACUGUAGGUAAUUAAUAAAAGGGGGAACCC_AGAA
.((.((.((((((..((((((((......)))))))).........((......))..)))))))).)).....................(((....)))..... (-15.68 = -16.48 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:30 2006