Locus 5763

Sequence ID 2L_DroMel_CAF1
Location 16,385,552 – 16,385,712
Length 160
Max. P 0.667891
window9129 window9130

overview

Window 9

Location 16,385,552 – 16,385,672
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.75
Mean single sequence MFE -29.40
Consensus MFE -22.37
Energy contribution -22.77
Covariance contribution 0.40
Combinations/Pair 1.16
Mean z-score -1.51
Structure conservation index 0.76
SVM decision value -0.02
SVM RNA-class probability 0.524309
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16385552 120 - 22407834
AAGGAGAUAUGGUUCUUCUAUCCAGCAUUUCACUCCUUUUGGCAAUUUUCCCAUUUAUUUCUGCUGCUGGGAAGCAAUUGAAAUGGUAUUUUCAUUUCCGAGUGUGCACUUGUUGCUCGA
.((((((......)))))).(((((((............(((........)))...........))))))).(((((..(((((((.....)))))))(((((....))))))))))... ( -29.40)
>DroSec_CAF1 9082 120 - 1
AAGGAGAUCUGGUUCUUCUAACCAGCAUUUCACUCCUUUUGGCAAUUUUCCCAUUUAUUUCUGCUGCCGGAGAGCAAUUGAAAUGGUAUUUUCAUUUCCGAGUGUGCACUUGUUGCUCGA
...(((((((((((.....)))))).)))))......(((((((....................)))))))((((((..(((((((.....)))))))(((((....))))))))))).. ( -33.65)
>DroSim_CAF1 7196 120 - 1
AAGAAGAACUGGUUCUUCUACCCAGCAUUUCACUCCUUUUGGCAAUUUUCCCAUUUAUUUCUGCUGCCGGAAAGCAAUUGAAAUGGUAUUUUCAUUUCCGAGUGUGCACUUGUUGCUCGA
.(((((((....)))))))...(((((...(((((.((((((((....................)))))))).......(((((((.....))))))).)))))......)))))..... ( -29.05)
>DroEre_CAF1 7243 120 - 1
CAGCAGAUUUUGCAUUUCCGCCCAGCAUUUCACUCCUUUUGGCAAUUUUCCCAUUUAUGGCCGCUGCCGGGUAGCAAUUGAAAUGGUAUUUUCAGUUCCGAGUGUACACUUGUUGCUCGC
((((.((...(((...........)))..)).........(((................))))))).((((((((((((((((......))))))))..((((....)))))))))))). ( -27.49)
>DroYak_CAF1 10429 120 - 1
AAGCAGAUUUGGUUCUUCUACCCAGCAUUUCACUCCUUUUGGCAAUUUUCCCACUUAUUUAUACUGCCGGGGAGCAAUUGAAAUGGUAUUUUCAUUUCCGAGUGUACACUUGUUGCUCGA
.((.(((......))).)).(((.(((............(((........)))...........))).)))((((((..(((((((.....)))))))(((((....))))))))))).. ( -27.40)
>consensus
AAGCAGAUCUGGUUCUUCUACCCAGCAUUUCACUCCUUUUGGCAAUUUUCCCAUUUAUUUCUGCUGCCGGGAAGCAAUUGAAAUGGUAUUUUCAUUUCCGAGUGUGCACUUGUUGCUCGA
.((((((......))))))...(((((...(((((.((((((((....................)))))))).......(((((((.....))))))).)))))......)))))..... (-22.37 = -22.77 +   0.40)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,385,592 – 16,385,712
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.56
Mean single sequence MFE -30.10
Consensus MFE -18.17
Energy contribution -18.53
Covariance contribution 0.36
Combinations/Pair 1.24
Mean z-score -2.11
Structure conservation index 0.60
SVM decision value 0.28
SVM RNA-class probability 0.667891
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16385592 120 + 22407834
CAAUUGCUUCCCAGCAGCAGAAAUAAAUGGGAAAAUUGCCAAAAGGAGUGAAAUGCUGGAUAGAAGAACCAUAUCUCCUUGUGGUAGUAAAACAUGUGGAGGGGGUGGGAAAUUGUGCGA
(((((.((((((((((.((........(((........))).......))...))))))...))))..((((.(((((.((((.........)))).)))))..))))..)))))..... ( -29.36)
>DroSec_CAF1 9122 120 + 1
CAAUUGCUCUCCGGCAGCAGAAAUAAAUGGGAAAAUUGCCAAAAGGAGUGAAAUGCUGGUUAGAAGAACCAGAUCUCCUUGUGGUAGUAAAACAUGUGGAGGGGGUGGGAAAUUGUGCAA
...(..((((((.(((.((........)).....(((((((.((((((.......((((((.....))))))..)))))).)))))))......))).).)))))..)............ ( -34.90)
>DroSim_CAF1 7236 120 + 1
CAAUUGCUUUCCGGCAGCAGAAAUAAAUGGGAAAAUUGCCAAAAGGAGUGAAAUGCUGGGUAGAAGAACCAGUUCUUCUUGUGGUAGUAAAACAUGUGGAGGGGGUGGGAAAUUGUGCAA
...(((((((((.((..(........(((.....(((((((.((((((......(((((.........))))).)))))).)))))))....)))......)..)).)))))....)))) ( -30.54)
>DroEre_CAF1 7283 103 + 1
CAAUUGCUACCCGGCAGCGGCCAUAAAUGGGAAAAUUGCCAAAAGGAGUGAAAUGCUGGGCGGAAAUGCAAAAUCUGCUGGU---------------GGAGUGGGUGGGAAAAUGU--AG
......(((((((.(((((((((....))).....(((((...((.(......).)).)))))...........)))))).)---------------)).))))............--.. ( -27.40)
>DroYak_CAF1 10469 118 + 1
CAAUUGCUCCCCGGCAGUAUAAAUAAGUGGGAAAAUUGCCAAAAGGAGUGAAAUGCUGGGUAGAAGAACCAAAUCUGCUUGUGGUAGUAGAAAAUGUGGAAGGGGUGGGAAAUUGU--AG
...(..((((((((((.(((.......(((........)))......)))...)))))).........(((..((((((......)))))).....)))..))))..)........--.. ( -28.32)
>consensus
CAAUUGCUCCCCGGCAGCAGAAAUAAAUGGGAAAAUUGCCAAAAGGAGUGAAAUGCUGGGUAGAAGAACCAAAUCUCCUUGUGGUAGUAAAACAUGUGGAGGGGGUGGGAAAUUGUGCAA
(((((.((.(((((((.((........(((........))).......))...))))))).)).....(((..(((((((..................))))))))))..)))))..... (-18.17 = -18.53 +   0.36)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:08 2006