Locus 4377

Sequence ID 3R_DroMel_CAF1
Location 11,559,920 – 11,560,011
Length 91
Max. P 0.999844
window7151 window7152

overview

Window 1

Location 11,559,920 – 11,560,011
Length 91
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 92.73
Mean single sequence MFE -26.11
Consensus MFE -24.23
Energy contribution -24.12
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -3.11
Structure conservation index 0.93
SVM decision value 4.23
SVM RNA-class probability 0.999844
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11559920 91 + 27905053
ACGGCACACACUGCGUAUACGCGACAUGCACGCAGCAGAGCGAACACAUUGCGUAUACGCAUCAUGCAGGCAACAUAAACAUUCACAAAUU
...(((.....(((((((((((((..((..(((......)))..))..)))))))))))))...))).(....)................. ( -28.70)
>DroSec_CAF1 93760 91 + 1
GCGGCACACACUGCGUAUACGCGACAUGCAAGCAGCAGAGCGAACACAUUGCGUAUACGCAUCAUGCAGGCACCAUAAACAUUCGCAAAUG
((((((.....(((((((((((((..((...((......))...))..)))))))))))))...))).(....).........)))..... ( -28.90)
>DroSim_CAF1 97267 91 + 1
ACGGCACACACUGCGUAUACGCGACAUGCAAGCAGCAGAGCGAACACAUUGCGUAUACGCAUCAUGCAGGCACCAUAAACAUUCGCAAAUG
...(((.....(((((((((((((..((...((......))...))..)))))))))))))...)))........................ ( -25.40)
>DroEre_CAF1 96647 88 + 1
---GCACACACUGCGUAUACGCGACAUGCAAGCAGCAGAGCGAACACAUUGCGUAUACGCAUCAUGCAGGCACCAUAAACAUUCGCAAAUA
---(((.....(((((((((((((..((...((......))...))..)))))))))))))...)))........................ ( -25.40)
>DroYak_CAF1 94286 88 + 1
---GCACACACUGCGUAUACGCGACAUGCAAGCAGCAAAGCGAACACAUUGCGUAUACGCAUCAUGCAGGCACCAUAAACAUUCGCAAGUG
---.....((((((((((((((((..((...((......))...))..))))))))))))....(((.................))))))) ( -25.83)
>DroAna_CAF1 178626 91 + 1
AGGGUACACACUGCGUAUACGCAACAUGCAAGCACAAAACCGAACACAUUGCGUAUACGCAUCAUGCAGGCACCAUAAACAUUCGUAAAUA
.((((.((...(((((((((((((..((...(........)...))..)))))))))))))...))...)).))................. ( -22.40)
>consensus
ACGGCACACACUGCGUAUACGCGACAUGCAAGCAGCAGAGCGAACACAUUGCGUAUACGCAUCAUGCAGGCACCAUAAACAUUCGCAAAUG
...(((.....(((((((((((((..((...((......))...))..)))))))))))))...)))........................ (-24.23 = -24.12 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 11,559,920 – 11,560,011
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 92.73
Mean single sequence MFE -34.58
Consensus MFE -30.85
Energy contribution -31.38
Covariance contribution 0.53
Combinations/Pair 1.04
Mean z-score -3.54
Structure conservation index 0.89
SVM decision value 3.76
SVM RNA-class probability 0.999596
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11559920 91 - 27905053
AAUUUGUGAAUGUUUAUGUUGCCUGCAUGAUGCGUAUACGCAAUGUGUUCGCUCUGCUGCGUGCAUGUCGCGUAUACGCAGUGUGUGCCGU
........................(((((.(((((((((((.((((((.(((......))).)))))).)))))))))))...)))))... ( -34.60)
>DroSec_CAF1 93760 91 - 1
CAUUUGCGAAUGUUUAUGGUGCCUGCAUGAUGCGUAUACGCAAUGUGUUCGCUCUGCUGCUUGCAUGUCGCGUAUACGCAGUGUGUGCCGC
.................((..(..((((..(((((((((((.((((((..((......))..)))))).))))))))))))))))..)).. ( -35.40)
>DroSim_CAF1 97267 91 - 1
CAUUUGCGAAUGUUUAUGGUGCCUGCAUGAUGCGUAUACGCAAUGUGUUCGCUCUGCUGCUUGCAUGUCGCGUAUACGCAGUGUGUGCCGU
...............((((..(..((((..(((((((((((.((((((..((......))..)))))).))))))))))))))))..)))) ( -36.20)
>DroEre_CAF1 96647 88 - 1
UAUUUGCGAAUGUUUAUGGUGCCUGCAUGAUGCGUAUACGCAAUGUGUUCGCUCUGCUGCUUGCAUGUCGCGUAUACGCAGUGUGUGC---
........................(((((.(((((((((((.((((((..((......))..)))))).)))))))))))...)))))--- ( -31.30)
>DroYak_CAF1 94286 88 - 1
CACUUGCGAAUGUUUAUGGUGCCUGCAUGAUGCGUAUACGCAAUGUGUUCGCUUUGCUGCUUGCAUGUCGCGUAUACGCAGUGUGUGC---
((((.((....))....))))...(((((.(((((((((((.((((((..((......))..)))))).)))))))))))...)))))--- ( -32.80)
>DroAna_CAF1 178626 91 - 1
UAUUUACGAAUGUUUAUGGUGCCUGCAUGAUGCGUAUACGCAAUGUGUUCGGUUUUGUGCUUGCAUGUUGCGUAUACGCAGUGUGUACCCU
.................(((((..((((..((((((((((((((((((..(((.....))).))))))))))))))))))))))))))).. ( -37.20)
>consensus
CAUUUGCGAAUGUUUAUGGUGCCUGCAUGAUGCGUAUACGCAAUGUGUUCGCUCUGCUGCUUGCAUGUCGCGUAUACGCAGUGUGUGCCGU
.................(((((..((((..(((((((((((.((((((..((......))..)))))).)))))))))))))))))))).. (-30.85 = -31.38 +   0.53)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:36 2006