Locus 2908

Sequence ID 3L_DroMel_CAF1
Location 8,292,198 – 8,292,315
Length 117
Max. P 0.841930
window4539 window4540

overview

Window 9

Location 8,292,198 – 8,292,315
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.39
Mean single sequence MFE -35.20
Consensus MFE -26.70
Energy contribution -26.82
Covariance contribution 0.12
Combinations/Pair 1.08
Mean z-score -2.14
Structure conservation index 0.76
SVM decision value 0.75
SVM RNA-class probability 0.841930
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8292198 117 + 23771897
AUCUGGCCAACUGCUAGCCCCAUUUGCCAUGUCACGGUACUCCA---GCCAGUGGCAAUCGCACCACUGACCAACUUAUCCAAAACCGGCUUCCAGCCGAGGCAGAGCCACUCCGAAUAU
...((((...(((((.........(((..(((((((((......---))).))))))...))).......................((((.....)))).))))).)))).......... ( -31.00)
>DroSec_CAF1 18136 115 + 1
AUCUGGCCAACUGCUGGC--CAUUUGCCAUGUCACGGUGCUCCA---GCCAGUGGCAAUCGCACCACUGACCAACUUAUCCAAAACCGGCUUCCAGCCGAGGCAGAGCCACUACGAAUAU
...((((((.....))))--))((((((..((((.(((((....---(((...)))....)))))..))))...............((((.....)))).)))))).............. ( -38.70)
>DroSim_CAF1 13658 115 + 1
AUCUGGCCAACUGCUGGC--CAUUUGGCAUGUCACGGUGCUCCA---GCCAGUGGCAAUCGCACCACUGACCAACUUAUCCAAAACCGGCUUCCAGCCGAGGCAGAGCCACUACGAAUAU
...((((((.....))))--))..((((.((((..(((((....---))((((((........)))))))))..............((((.....)))).))))..)))).......... ( -39.00)
>DroEre_CAF1 14023 112 + 1
---UGGCCAACUGGUGGC--CAUUUGCCAUGUCACGGUGCUCCA---GCCACUGGCAAUCGCACCACUGACCAACUUAUCCACAACCGGCUCCCAGCUGAAGCAGAGCCACUCCGAAUAU
---.(((((.....))))--)(((((....((((.(((((....---(((...)))....)))))..))))................(((((...((....)).)))))....))))).. ( -34.00)
>DroYak_CAF1 13543 118 + 1
ACCUGGCCAACUGGUGGC--CAUUUGCCAUGUCACGGUGCUCCACUGGCCACUGGCAAUCGCACCACUGACCAACUUAUCCACAACCGGCUCCCAGCUGAAGCAGAGCCACUCCGAAUAU
...(((.((..(((((.(--...((((((.((..(((((...)))))...))))))))..)))))).)).)))..............(((((...((....)).)))))........... ( -33.30)
>consensus
AUCUGGCCAACUGCUGGC__CAUUUGCCAUGUCACGGUGCUCCA___GCCAGUGGCAAUCGCACCACUGACCAACUUAUCCAAAACCGGCUUCCAGCCGAGGCAGAGCCACUCCGAAUAU
...((((...(((((...............((((.(((((.......(((...)))....)))))..))))...............((((.....)))).))))).)))).......... (-26.70 = -26.82 +   0.12)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,292,198 – 8,292,315
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.39
Mean single sequence MFE -46.22
Consensus MFE -34.66
Energy contribution -35.14
Covariance contribution 0.48
Combinations/Pair 1.05
Mean z-score -1.97
Structure conservation index 0.75
SVM decision value 0.40
SVM RNA-class probability 0.720129
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8292198 117 - 23771897
AUAUUCGGAGUGGCUCUGCCUCGGCUGGAAGCCGGUUUUGGAUAAGUUGGUCAGUGGUGCGAUUGCCACUGGC---UGGAGUACCGUGACAUGGCAAAUGGGGCUAGCAGUUGGCCAGAU
..........(((((((((..((((.....))))(((.(((.((..(..(((((((((......)))))))))---..)..))))).))).((((.......))))))))..)))))... ( -45.60)
>DroSec_CAF1 18136 115 - 1
AUAUUCGUAGUGGCUCUGCCUCGGCUGGAAGCCGGUUUUGGAUAAGUUGGUCAGUGGUGCGAUUGCCACUGGC---UGGAGCACCGUGACAUGGCAAAUG--GCCAGCAGUUGGCCAGAU
..........(((((((((...(((((...(((((((.(((.....(..(((((((((......)))))))))---..)....))).))).))))...))--))).))))..)))))... ( -47.40)
>DroSim_CAF1 13658 115 - 1
AUAUUCGUAGUGGCUCUGCCUCGGCUGGAAGCCGGUUUUGGAUAAGUUGGUCAGUGGUGCGAUUGCCACUGGC---UGGAGCACCGUGACAUGCCAAAUG--GCCAGCAGUUGGCCAGAU
..........(((((((((..((((.....))))(((.(((.....(..(((((((((......)))))))))---..)....))).)))..(((....)--))..))))..)))))... ( -44.80)
>DroEre_CAF1 14023 112 - 1
AUAUUCGGAGUGGCUCUGCUUCAGCUGGGAGCCGGUUGUGGAUAAGUUGGUCAGUGGUGCGAUUGCCAGUGGC---UGGAGCACCGUGACAUGGCAAAUG--GCCACCAGUUGGCCA---
.((((((((.(((((((((....))..))))))).)).))))))...(((((((((((((.(((((((((.((---.((....)))).)).)))).))).--).))))).)))))))--- ( -46.10)
>DroYak_CAF1 13543 118 - 1
AUAUUCGGAGUGGCUCUGCUUCAGCUGGGAGCCGGUUGUGGAUAAGUUGGUCAGUGGUGCGAUUGCCAGUGGCCAGUGGAGCACCGUGACAUGGCAAAUG--GCCACCAGUUGGCCAGGU
.((((((((.(((((((((....))..))))))).)).))))))..(((((((((((((.....((((...((((.((..((...))..))))))...))--))))))).)))))))).. ( -47.20)
>consensus
AUAUUCGGAGUGGCUCUGCCUCGGCUGGAAGCCGGUUUUGGAUAAGUUGGUCAGUGGUGCGAUUGCCACUGGC___UGGAGCACCGUGACAUGGCAAAUG__GCCAGCAGUUGGCCAGAU
.((((((((.(((((((((....)).)).))))).)).))))))..((((((((.(((((.....(((........))).))))).((...((((.......)))).)).)))))))).. (-34.66 = -35.14 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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