Locus 5442

Sequence ID 3L_DroMel_CAF1
Location 14,909,402 – 14,909,532
Length 130
Max. P 0.935709
window8610 window8611

overview

Window 0

Location 14,909,402 – 14,909,498
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 87.50
Mean single sequence MFE -35.98
Consensus MFE -30.26
Energy contribution -29.98
Covariance contribution -0.27
Combinations/Pair 1.23
Mean z-score -2.62
Structure conservation index 0.84
SVM decision value 1.25
SVM RNA-class probability 0.935709
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14909402 96 + 23771897
GGGAUCGGAAUCUCCUUCGAAGGCUUGGAGUUCUUGAAGACCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAGGCGCCGGUAAGAGAU
...(((((..(((((.((((......((((((.(((((((((........))))))))).))))))......)))).)))))..)))))....... ( -38.20)
>DroSec_CAF1 91487 96 + 1
GAGAUCGGAAUCUCCUUCGAAGGCUUGGAGUUCUUGAAGAUCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAAGCGCCGGUAAAAGAU
...(((((....(((.((((......((((((.(((((((((........))))))))).))))))......)))).)))....)))))....... ( -30.60)
>DroSim_CAF1 88575 96 + 1
GAGAUCGGGAUCUCUUUCGAAGGCUUGGAGUUCUUGAAGAUCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAGGCGCCGGUGAGAGAU
(((((....)))))(((((..(((..((((.((.....)).))))......(((((((.(((((......))))).))))))))))..)))))... ( -34.50)
>DroEre_CAF1 88864 96 + 1
GUGAUCGGGGUCUCCUUUGAAGGCUUUGAGCUCUUGAAGAUCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAGGCGCCGGUAAGAGAU
...(((((.(((((((((((((.....(((((.(((((((((........))))))))).)))))))))))).....)))))).)))))....... ( -39.30)
>DroYak_CAF1 84181 96 + 1
GAGACCGGGAUCUCCUUUGCAGGCUUCGGGUUCUUGAAGAUCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAGGCGCCGGUAAGAGAU
...(((((...(.((((..(..((((.(((((.(((((((((........))))))))).)))))....))))..)..)))).))))))....... ( -33.50)
>DroAna_CAF1 78194 96 + 1
GCGACUUGCUUCUCUCCACUGGACUUGGAGUUCUUGAAGAUCCUCUUGAAGGACUUCAGCAGCUUCUUCAUGUUGGCGGAGGCACCAGUGAGAGAU
((.....)).((((((.(((((..(((((((((((.(((.....))).)))))))))))..((((((.(......).)))))).))))))))))). ( -39.80)
>consensus
GAGAUCGGGAUCUCCUUCGAAGGCUUGGAGUUCUUGAAGAUCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAGGCGCCGGUAAGAGAU
...(((((..(((((......(((((((((((.(((((((((........))))))))).)))))...))))))...)))))..)))))....... (-30.26 = -29.98 +  -0.27)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,909,418 – 14,909,532
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.32
Mean single sequence MFE -40.53
Consensus MFE -29.13
Energy contribution -29.33
Covariance contribution 0.20
Combinations/Pair 1.30
Mean z-score -2.05
Structure conservation index 0.72
SVM decision value 0.76
SVM RNA-class probability 0.842716
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14909418 114 + 23771897
UCGAAGGCUUGGAGUUCUUGAAGACCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAGGCGCCGGUAAGAGAUUUCUUCUCUGUCACUCCA---UUGAAGUUGGAAA---CAA
..........((((((.(((((((((........))))))))).))))))(((((.(..((((((..((.....(((((.....)))))))..)))))---)..)..)))))..---... ( -39.10)
>DroSec_CAF1 91503 114 + 1
UCGAAGGCUUGGAGUUCUUGAAGAUCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAAGCGCCGGUAAAAGAUUUCUUCUCUGGCAUUCCA---UUGAAGUUGGAAA---CUA
..........((((((.(((((((((........))))))))).))))))(((((.(..((((((..(((((...(((....)))..))))).)))))---)..)..)))))..---... ( -39.90)
>DroSim_CAF1 88591 114 + 1
UCGAAGGCUUGGAGUUCUUGAAGAUCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAGGCGCCGGUGAGAGAUUUCUUCUCUGGCAUUCCA---UUGAAGUUGGAAA---CUA
..........((((((.(((((((((........))))))))).))))))(((((.(..((((((..(((((.((.((....)))).))))).)))))---)..)..)))))..---... ( -40.80)
>DroYak_CAF1 84197 114 + 1
UUGCAGGCUUCGGGUUCUUGAAGAUCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAGGCGCCGGUAAGAGAUUUCUUCUCUGGCACUCCA---UUGAAGUUGGAAA---CGA
.....(((((((((((.(((((((((........))))))))).))))).........(((((((..(((((.(((......)))..))))).)))))---))))))))(....---).. ( -40.60)
>DroAna_CAF1 78210 117 + 1
CACUGGACUUGGAGUUCUUGAAGAUCCUCUUGAAGGACUUCAGCAGCUUCUUCAUGUUGGCGGAGGCACCAGUGAGAGAUUGUUUCUCAGAAACUCCG---UUGGAGUUGGCGGUGGAAA
((((((..(((((((((((.(((.....))).)))))))))))..((((((.(......).)))))).)))))).((((.....)))).....(.(((---((......))))).).... ( -43.30)
>DroPer_CAF1 135625 117 + 1
UGCCCGCCUUCGAGUGGGUGAAGAUCCGCCUGAUGCUCUUUAGCAGCUUCUUCAUGUUGGUGGCGGCGCCGGUGAGAGAGCUCUUCUCCGGCACACCAGAGCUGGAGUUGAAAC---GAU
.(((.(((...(((((((((......)))))...)))).....((((........))))..))))))(((((.((((....))))..)))))((.(((....))).))......---... ( -39.50)
>consensus
UCGAAGGCUUGGAGUUCUUGAAGAUCUUCUUGAUGGUCUUCAGCAGCUUCUUCAGGUUGGUGGAGGCGCCGGUAAGAGAUUUCUUCUCUGGCACUCCA___UUGAAGUUGGAAA___CAA
...........(((((.(((((((((........))))))))).)))))((((((.....(((((..(((((...(((....)))..))))).)))))...))))))............. (-29.13 = -29.33 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:27 2006