Locus 2073

Sequence ID 2L_DroMel_CAF1
Location 5,578,166 – 5,578,286
Length 120
Max. P 0.999946
window3351 window3352

overview

Window 1

Location 5,578,166 – 5,578,286
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.33
Mean single sequence MFE -43.26
Consensus MFE -34.38
Energy contribution -36.78
Covariance contribution 2.40
Combinations/Pair 1.00
Mean z-score -2.79
Structure conservation index 0.79
SVM decision value 2.28
SVM RNA-class probability 0.991684
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5578166 120 + 22407834
UAUGUUUGCUUGUUUUUCGACGGCAACACGCGCGACGAUGACGUCGGAGUGCAGCCUGCCUGGAAGCCGGAAAAUUCGGGAAAUUCAACCGGCUAACCAGCAGAAAACAAGCUGGCAAAU
..(((..((((((((((....(((..(((.(.(((((....)))))).)))..)))(((.(((.((((((..((((.....))))...))))))..))))))))))))))))..)))... ( -46.30)
>DroSec_CAF1 22168 117 + 1
UAUGUUUGCUUGUUUUUCGACGGCAACACGUGCGACGAUGACGUCGGAGUGCAGCCUGCCUGGGAGCCGGAAAAUUCGGGAAAUUCAACCGGCUAACCA---GAAAACAAGCUGGCAAAU
..(((..(((((((((.....(((..(((.(.(((((....))))).))))..)))...((((.((((((..((((.....))))...))))))..)))---))))))))))..)))... ( -44.80)
>DroSim_CAF1 23819 120 + 1
UAUGUUUGCUUGUUUUUCGACGGCAACACGCGCGACGAUGACGUCGGAGUGCAGCCUGCCUGGGAGCCGGAAAAUUCGGGAAAUUCAACCGGCUAACCAGCAGAAAACAAGCUGGCAAAU
..(((..((((((((((....(((..(((.(.(((((....)))))).)))..)))(((.(((.((((((..((((.....))))...))))))..))))))))))))))))..)))... ( -47.00)
>DroEre_CAF1 22095 113 + 1
UACGGUUGCUUGUUUUUCGAUGGCAACACGCGCGACGCCG-------AGUAGAACCUGCCUGGGAGCCGGAAAAUUCGGGAAAUUCAACCGGCUAACCAGCAGAAAACAAGCUGGCAAAU
....(((((((((((((((.((....)).(((...)))))-------).......((((.(((.((((((..((((.....))))...))))))..)))))))))))))))).))).... ( -35.30)
>DroYak_CAF1 22007 120 + 1
UAUGUUUGCUUGUUUUUCGAGGGCAACACGCGCGACGAUGACGUCGUAGUAGAACCUGCCUGGGAGCCGGAAAAUUCGGGAAAUUCAACCGGCUAACCAGCAGAAAACAAGCUGGCAAAU
..(((..(((((((((((...(....)((..((((((....)))))).)).))..((((.(((.((((((..((((.....))))...))))))..))))))))))))))))..)))... ( -42.90)
>consensus
UAUGUUUGCUUGUUUUUCGACGGCAACACGCGCGACGAUGACGUCGGAGUGCAGCCUGCCUGGGAGCCGGAAAAUUCGGGAAAUUCAACCGGCUAACCAGCAGAAAACAAGCUGGCAAAU
..((((.((((((((((....(((..(((...(((((....)))))..)))..)))...((((.((((((..((((.....))))...))))))..))))..)))))))))).))))... (-34.38 = -36.78 +   2.40)

alignment

Postscript

secondary structure

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dotplot

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Window 2

Location 5,578,166 – 5,578,286
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.33
Mean single sequence MFE -44.44
Consensus MFE -39.58
Energy contribution -40.30
Covariance contribution 0.72
Combinations/Pair 1.06
Mean z-score -3.46
Structure conservation index 0.89
SVM decision value 4.75
SVM RNA-class probability 0.999946
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5578166 120 - 22407834
AUUUGCCAGCUUGUUUUCUGCUGGUUAGCCGGUUGAAUUUCCCGAAUUUUCCGGCUUCCAGGCAGGCUGCACUCCGACGUCAUCGUCGCGCGUGUUGCCGUCGAAAAACAAGCAAACAUA
........((((((((((((((((..((((((..((((((...)))))).)))))).))).)))(((.((((.((((((....))))).).)))).)))...).)))))))))....... ( -49.30)
>DroSec_CAF1 22168 117 - 1
AUUUGCCAGCUUGUUUUC---UGGUUAGCCGGUUGAAUUUCCCGAAUUUUCCGGCUCCCAGGCAGGCUGCACUCCGACGUCAUCGUCGCACGUGUUGCCGUCGAAAAACAAGCAAACAUA
........((((((((((---(((..((((((..((((((...)))))).)))))).))))...(((.((((..(((((....)))))...)))).))).....)))))))))....... ( -45.60)
>DroSim_CAF1 23819 120 - 1
AUUUGCCAGCUUGUUUUCUGCUGGUUAGCCGGUUGAAUUUCCCGAAUUUUCCGGCUCCCAGGCAGGCUGCACUCCGACGUCAUCGUCGCGCGUGUUGCCGUCGAAAAACAAGCAAACAUA
........((((((((((((((((..((((((..((((((...)))))).)))))).))).)))(((.((((.((((((....))))).).)))).)))...).)))))))))....... ( -48.30)
>DroEre_CAF1 22095 113 - 1
AUUUGCCAGCUUGUUUUCUGCUGGUUAGCCGGUUGAAUUUCCCGAAUUUUCCGGCUCCCAGGCAGGUUCUACU-------CGGCGUCGCGCGUGUUGCCAUCGAAAAACAAGCAACCGUA
........((((((((((((((((..((((((..((((((...)))))).)))))).))).))))........-------.((((.((....)).)))).....)))))))))....... ( -38.40)
>DroYak_CAF1 22007 120 - 1
AUUUGCCAGCUUGUUUUCUGCUGGUUAGCCGGUUGAAUUUCCCGAAUUUUCCGGCUCCCAGGCAGGUUCUACUACGACGUCAUCGUCGCGCGUGUUGCCCUCGAAAAACAAGCAAACAUA
........((((((((((((((((..((((((..((((((...)))))).)))))).))).)))(((..(((..(((((....)))))...)))..)))...).)))))))))....... ( -40.60)
>consensus
AUUUGCCAGCUUGUUUUCUGCUGGUUAGCCGGUUGAAUUUCCCGAAUUUUCCGGCUCCCAGGCAGGCUGCACUCCGACGUCAUCGUCGCGCGUGUUGCCGUCGAAAAACAAGCAAACAUA
........(((((((((...((((..((((((..((((((...)))))).)))))).))))...(((..(((..(((((....)))))...)))..))).....)))))))))....... (-39.58 = -40.30 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:54 2006