Locus 7923

Sequence ID 3L_DroMel_CAF1
Location 21,059,714 – 21,059,945
Length 231
Max. P 0.719436
window12920 window12921

overview

Window 0

Location 21,059,714 – 21,059,834
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.17
Mean single sequence MFE -30.22
Consensus MFE -27.82
Energy contribution -27.86
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.20
Structure conservation index 0.92
SVM decision value 0.40
SVM RNA-class probability 0.719436
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21059714 120 - 23771897
CACCAAUACCACUUUAAAGUACCAGCCUCGAAAUCAGGUGCGCUUUUAGAAGCCUCCUACAUGGAAGUUUCCAACUCGAGCUGCGCCUGAUCGACUGACCCACAAAAAGCCUUUGGGCGG
........((............(((..((((..((((((((((((((.(((((.(((.....))).))))).))...)))).)))))))))))))))...........(((....))))) ( -37.30)
>DroSec_CAF1 114716 120 - 1
CACCAAUACCACUUAAAAGUACCAGCCUCAAAUUCAGAUGCGCUUUUAGAAGCCUCCUACGUGGAAGUUUCCAACUCGAGUUGCGCCUGAUCGACUGACCCACAAAAAGCCUUUGGGCGG
........((............(((..((....((((..((((.....(((((.(((.....))).))))).(((....)))))))))))..)))))...........(((....))))) ( -25.40)
>DroSim_CAF1 20985 120 - 1
CACCAAUACCACUUAAAAGUACCAGCCUCGAAUUCAGAUGCGCUUUUAGAAGCCUCCUACAUGGAAGUUUCCAACUCGAGUUGCGCCUGAUCGACUGACCCACAAAAAGCCUUUGGGCGG
........((............(((..((((..((((..((((.....(((((.(((.....))).))))).(((....))))))))))))))))))...........(((....))))) ( -29.40)
>DroEre_CAF1 37251 116 - 1
CACCAAUACCACUUAAAAA---CAGCCUCGAAUUCAGAUGCGCUUUUAGAAGCCUCCUACAUGGAAGUUUCCAACUCGAGUUGCGCCUGAUCGACUGACCCACAA-AAGCCUUUGGGCGG
........((.........---(((..((((..((((..((((.....(((((.(((.....))).))))).(((....))))))))))))))))))........-..(((....))))) ( -29.60)
>DroYak_CAF1 8117 117 - 1
---CAAUACCACUUAAAAAUACCAGCCUCGAAUUCAGAUGCGCUUUUAGAAGCCUCCUACAUGGAAGUUUCCAACUCGAGUUGCGCCUGAUCGACUGACCCACAAAAAGCCUUUGGGCGG
---.....((............(((..((((..((((..((((.....(((((.(((.....))).))))).(((....))))))))))))))))))...........(((....))))) ( -29.40)
>consensus
CACCAAUACCACUUAAAAGUACCAGCCUCGAAUUCAGAUGCGCUUUUAGAAGCCUCCUACAUGGAAGUUUCCAACUCGAGUUGCGCCUGAUCGACUGACCCACAAAAAGCCUUUGGGCGG
........((............(((..((((..((((.(((((((((.(((((.(((.....))).))))).))...)))).))).)))))))))))...........(((....))))) (-27.82 = -27.86 +   0.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,059,834 – 21,059,945
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.38
Mean single sequence MFE -35.00
Consensus MFE -26.52
Energy contribution -27.44
Covariance contribution 0.92
Combinations/Pair 1.15
Mean z-score -1.62
Structure conservation index 0.76
SVM decision value 0.15
SVM RNA-class probability 0.607215
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21059834 111 - 23771897
UUUGUUGAUUAAGUUCAGAUUUGAAUUCGAGUUCUGGGCGGUAAGU---------GUGGUGGGUCGGCCGAAGCAGAUGGGGGGCAAUAACCCAUGGGCUGAUGACCCAGUUGGUCAGCA
..(((((((((((((((((((((....)))).))))))).......---------....(((((((.....(((..(((((.........)))))..)))..))))))).)))))))))) ( -42.70)
>DroSec_CAF1 114836 107 - 1
UUUGUUGAUUAAGUGUAGAUUUGAAUUCGAGUUCUGGGCGGAAAGU---------GUGGGGGGU----CGGAGCAGAUGGGGGGCAACAACCCAUGGGCUGAUGACCCAGUUGGUCAGUA
....((((((((((.((((((((....)))).)))).)).......---------.....((((----((.(((..(((((.(....)..)))))..)))..))))))..)))))))).. ( -37.30)
>DroSim_CAF1 21105 111 - 1
UUUGUUGAUUAAGUGUAGAUUUGAAUUCGAGUUCUGGGCGGAAAGU---------GUGGGGGGUCGGUCGGAGCAGAUGGGGGGCAACAACCCAUGGGCUGAUGACCCAGUUGGUCAGUA
....((((((((((.((((((((....)))).)))).)).......---------.....((((((.((..(((..(((((.(....)..)))))..)))))))))))..)))))))).. ( -36.30)
>DroEre_CAF1 37367 110 - 1
UUUGUUGAUAAAGUGUAGAUUUGAAUUCGAGUUCUGGGUGGGAAGU---------GUGUGGGGUUGGUCGGAGCAGAUGGG-GGCAACAACCCAUGGGCUGAUGACCCAAUUGGCCAGCC
...((..((........((((((....)))))).(((((.(..(((---------.((((((.((.(((......))).))-(....)..)))))).)))..).)))))))..))..... ( -31.80)
>DroYak_CAF1 8234 114 - 1
UUUCUUGAUAAAGUGUAGAUUUGACUUCGAGUUCUGGGUGGGAAGUGGGAAGUGUGUGUGGGGUUGGUCGGAGCAGAUGGG-GGCAACAACCCAUGGGCUGAUGACCCAAUUGGU-----
....(..((.((.(.((.((...(((((.(.((((.....)))).).).))))..)).)).).))(((((.(((..(((((-........)))))..)))..)))))..))..).----- ( -26.90)
>consensus
UUUGUUGAUUAAGUGUAGAUUUGAAUUCGAGUUCUGGGCGGAAAGU_________GUGGGGGGUCGGUCGGAGCAGAUGGGGGGCAACAACCCAUGGGCUGAUGACCCAGUUGGUCAGCA
...(((((((((((.((((((((....)))).)))).)).....................((((((.....(((..(((((.(....)..)))))..)))..))))))..))))))))). (-26.52 = -27.44 +   0.92)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:00 2006