Locus 6852

Sequence ID 3R_DroMel_CAF1
Location 18,135,949 – 18,136,077
Length 128
Max. P 0.999951
window11119 window11120

overview

Window 9

Location 18,135,949 – 18,136,046
Length 97
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 95.46
Mean single sequence MFE -34.97
Consensus MFE -33.58
Energy contribution -33.67
Covariance contribution 0.09
Combinations/Pair 1.09
Mean z-score -2.75
Structure conservation index 0.96
SVM decision value 4.80
SVM RNA-class probability 0.999951
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18135949 97 - 27905053
CCAUUUCGGUGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCGCGUUGAGCUGCCAGAAAAUUGAAACAUUUAGCGGCUACGUGAGUGCGUU
.......((((((((((..(((((((....)))))))))))))))))((....((((((.(((...........))).))))))((....))))... ( -36.50)
>DroSec_CAF1 164565 97 - 1
CCAUUUCGGUGCUGCAACUGCGUUUAUUAUUAAAUGUCUGUGGCGCCGCGUUGAGCUGCCAGAAAAUUGAAACAUUUAGCGGCUACGUGAGUGCAUU
.......(((((..((...(((((((....))))))).))..)))))((....((((((.(((...........))).))))))((....))))... ( -31.10)
>DroSim_CAF1 169447 97 - 1
CCAUUUCGGUGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGUGGCGCCGCGUUGAGCUGCCAGAAAAUUGAAACAUUUAGCGGCUACGUGAGUGCGUU
.......(((((..(((..(((((((....))))))))))..)))))((....((((((.(((...........))).))))))((....))))... ( -34.00)
>DroEre_CAF1 176149 97 - 1
CCAUUUCGGCGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCGCGUUGAGCUGCCAGAAAAUUGAAACAUUUAGCGGCUACGUGAGUGCGUU
.......((((((((((..(((((((....)))))))))))))))))((....((((((.(((...........))).))))))((....))))... ( -38.40)
>DroYak_CAF1 173417 97 - 1
CCAUUUCGGUGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCGCGUUGAGCUGCCAGAAAAUUGAAACAUUUAGCGGCUACGUGAGUGCGUU
.......((((((((((..(((((((....)))))))))))))))))((....((((((.(((...........))).))))))((....))))... ( -36.50)
>DroAna_CAF1 159845 93 - 1
----UUUGGCGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCACGUUGAGCUGCCAGAAAAUUGAAACAUUUACCCGCUACGUGAGUGCGUU
----..(((((((((((..(((((((....))))))))))))))))))................................(((.((....))))).. ( -33.30)
>consensus
CCAUUUCGGUGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCGCGUUGAGCUGCCAGAAAAUUGAAACAUUUAGCGGCUACGUGAGUGCGUU
.......((((((((((..(((((((....)))))))))))))))))((((..((((((.(((...........))).))))))((....)))))). (-33.58 = -33.67 +   0.09)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,135,980 – 18,136,077
Length 97
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 91.40
Mean single sequence MFE -36.35
Consensus MFE -29.99
Energy contribution -31.22
Covariance contribution 1.22
Combinations/Pair 1.08
Mean z-score -2.86
Structure conservation index 0.83
SVM decision value 1.36
SVM RNA-class probability 0.945754
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18135980 97 - 27905053
AAAGCCAGCGAGACAUCCGGGAAAGUUCUGGCCAUUUCGGUGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCGCGUUGAGCUGCCAGAAAA
..(((((((((((...((((((...))))))...))))((((((((((..(((((((....)))))))))))))))))..)))).)))......... ( -39.40)
>DroSec_CAF1 164596 97 - 1
AAAGCCAGCGAGACAUCCGGGAAAGUUCUGGCCAUUUCGGUGCUGCAACUGCGUUUAUUAUUAAAUGUCUGUGGCGCCGCGUUGAGCUGCCAGAAAA
..(((((((((((...((((((...))))))...))))(((((..((...(((((((....))))))).))..)))))..)))).)))......... ( -34.00)
>DroSim_CAF1 169478 97 - 1
AAAGCCAGCGAGACAUCCGGGAAAGUUCUGGCCAUUUCGGUGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGUGGCGCCGCGUUGAGCUGCCAGAAAA
..(((((((((((...((((((...))))))...))))(((((..(((..(((((((....))))))))))..)))))..)))).)))......... ( -36.90)
>DroEre_CAF1 176180 96 - 1
AGAGCCAGGGAGACAUCCGGGAAAGUUCUG-CCAUUUCGGCGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCGCGUUGAGCUGCCAGAAAA
....((..(((....))).))....(((((-.((....((((((((((..(((((((....)))))))))))))))))((.....)))).))))).. ( -38.00)
>DroYak_CAF1 173448 97 - 1
AAAGCCAGGGAGACAGCCGGGAAAGUUCUGGCCAUUUCGGUGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCGCGUUGAGCUGCCAGAAAA
....((.((.......)).))....(((((((......((((((((((..(((((((....)))))))))))))))))((.....)).))))))).. ( -39.70)
>DroAna_CAF1 159876 88 - 1
AAAGCCAUACAGACAUCCGGAAAAAC---------UUUGGCGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCACGUUGAGCUGCCAGAAAA
.................(((...(((---------..(((((((((((..(((((((....)))))))))))))))))).)))...)))........ ( -30.10)
>consensus
AAAGCCAGCGAGACAUCCGGGAAAGUUCUGGCCAUUUCGGUGCUGCAGCUGCGUUUAUUAUUAAAUGUCUGCGGCGCCGCGUUGAGCUGCCAGAAAA
.........................(((((((......((((((((((..(((((((....)))))))))))))))))((.....)).))))))).. (-29.99 = -31.22 +   1.22)

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 12:31:31 2006