Locus 5713

Sequence ID 3R_DroMel_CAF1
Location 14,934,986 – 14,935,146
Length 160
Max. P 0.919951
window9349 window9350

overview

Window 9

Location 14,934,986 – 14,935,106
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -30.57
Consensus MFE -26.58
Energy contribution -26.66
Covariance contribution 0.08
Combinations/Pair 1.06
Mean z-score -1.21
Structure conservation index 0.87
SVM decision value -0.01
SVM RNA-class probability 0.530294
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14934986 120 + 27905053
UCUACGGCUAAAUAAAUGCGAGGCAUCUGCAAAGUGUCUAAUUAAAUGUGCCGAAUUUAAUGAUGAUAACUCUGGCUAAGACCAUUGCCUGCAGUGCAAUUUUGGCCGGCUCUGACUUUA
....((((((((....((((..(((...((((..((((..(((((((.......)))))))...))))....(((......))))))).)))..))))..))))))))............ ( -30.80)
>DroSec_CAF1 66435 120 + 1
UCUACGGCUAAAUAAAUGCGAGGCAUCUGCAAAGUGUCUAAUUAAAUGUGCCGAAUUUAAUGAUGAUAACUCUGGCUUAGACCAUUGCCUGCAGUGCAAUCUUGGCCGGCUCUGACUUUA
....(((((((.....((((..(((...((((.(.((((((........((((...................))))))))))).)))).)))..))))...)))))))............ ( -29.31)
>DroSim_CAF1 63520 120 + 1
UCUACGGCCAAAUAAAUGCGAGGCAUCUGCAAAGUGUCUAAUUAAAUGUGCCGAAUUUAAUGAUGAUAACUCUGGCUUAGACCAUUGCCUGCAGUGCAAUCUUGGCCGGCUCUGACUCUA
....(((((((.....((((..(((...((((.(.((((((........((((...................))))))))))).)))).)))..))))...)))))))............ ( -31.61)
>DroEre_CAF1 61399 119 + 1
UCUCCGGCUAAAUAAAUGCGAGGCAUCUGCAAAGUGUCUAAUUAAAUGUGCCGAAUUUAAUGAUGAUAACUUUGGCUUAGA-CAUUGCCUGCAGUUCAAUCUUGGCCGGCUCUGACUUUU
...((((((((.....(((.((((((((((((((((((..(((((((.......)))))))...))).))))))...))))-...))))))))........))))))))........... ( -34.32)
>DroYak_CAF1 68240 119 + 1
UCUCCAGCUAAAUAAAUGCGAGGUAUCUGCAAAGUGUCUAAUUAAAUGUGCCGAAUUUAAUGAUGAUAACUUUGGCUUAGA-CAUUGCCUGCAGUUCAAUUUUGCCCGGCUCUGACUUUU
((...((((........(((((((..(((((.(((((((((........((((((.(((.......))).)))))))))))-))))...)))))....)))))))..))))..))..... ( -26.80)
>consensus
UCUACGGCUAAAUAAAUGCGAGGCAUCUGCAAAGUGUCUAAUUAAAUGUGCCGAAUUUAAUGAUGAUAACUCUGGCUUAGACCAUUGCCUGCAGUGCAAUCUUGGCCGGCUCUGACUUUA
....(((((((.....(((.((((((((((..((((((..(((((((.......)))))))...))).)))...))..)))....))))))))........)))))))............ (-26.58 = -26.66 +   0.08)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,935,026 – 14,935,146
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.16
Mean single sequence MFE -34.54
Consensus MFE -32.26
Energy contribution -32.82
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -1.41
Structure conservation index 0.93
SVM decision value 1.13
SVM RNA-class probability 0.919951
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14935026 120 + 27905053
AUUAAAUGUGCCGAAUUUAAUGAUGAUAACUCUGGCUAAGACCAUUGCCUGCAGUGCAAUUUUGGCCGGCUCUGACUUUAGCAUUUUGGCCAACCGGUCAAGGUGAAAGUUGCGCCACCU
(((((((.......)))))))............((((((((.(((((....)))))...))))))))(((.(.(((((...((((((((((....)))))))))).)))))).))).... ( -37.10)
>DroSec_CAF1 66475 120 + 1
AUUAAAUGUGCCGAAUUUAAUGAUGAUAACUCUGGCUUAGACCAUUGCCUGCAGUGCAAUCUUGGCCGGCUCUGACUUUAGCAUUUUGGCCAACCGGUCAAGGUGAAAGUUGCGCCACCU
(((((((.......)))))))............((((.(((.(((((....)))))...))).))))(((.(.(((((...((((((((((....)))))))))).)))))).))).... ( -36.10)
>DroSim_CAF1 63560 119 + 1
AUUAAAUGUGCCGAAUUUAAUGAUGAUAACUCUGGCUUAGACCAUUGCCUGCAGUGCAAUCUUGGCCGGCUCUGACUCUAGCAUUUUGGCCAACCGGUCAAGGUGAAAGUUGCGCCACC-
(((((((.......)))))))............((((.(((.(((((....)))))...))).))))(((.(.((((....((((((((((....))))))))))..))))).)))...- ( -34.90)
>DroEre_CAF1 61439 119 + 1
AUUAAAUGUGCCGAAUUUAAUGAUGAUAACUUUGGCUUAGA-CAUUGCCUGCAGUUCAAUCUUGGCCGGCUCUGACUUUUGCAUUUUGGCCAACCGGUCAAGGUGAAAGUUGCGCCACCU
.......(.(((((.......(((...((((..(((.....-....)))...))))..)))))))))(((.(.((((((..(...((((((....)))))).)..))))))).))).... ( -33.11)
>DroYak_CAF1 68280 119 + 1
AUUAAAUGUGCCGAAUUUAAUGAUGAUAACUUUGGCUUAGA-CAUUGCCUGCAGUUCAAUUUUGCCCGGCUCUGACUUUUGCAUUUUGGCCAACCGGUCAAGGUGAAAGUUGCGCCACCU
....(((((((((((.(((.......))).))))))....)-))))....((((.......))))..(((.(.((((((..(...((((((....)))))).)..))))))).))).... ( -31.50)
>consensus
AUUAAAUGUGCCGAAUUUAAUGAUGAUAACUCUGGCUUAGACCAUUGCCUGCAGUGCAAUCUUGGCCGGCUCUGACUUUAGCAUUUUGGCCAACCGGUCAAGGUGAAAGUUGCGCCACCU
(((((((.......)))))))............((((.(((.(((((....)))))...))).))))(((.(.(((((...((((((((((....)))))))))).)))))).))).... (-32.26 = -32.82 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:37 2006