Locus 5767

Sequence ID 2L_DroMel_CAF1
Location 16,388,522 – 16,388,681
Length 159
Max. P 0.889194
window9134 window9135

overview

Window 4

Location 16,388,522 – 16,388,641
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.20
Mean single sequence MFE -30.16
Consensus MFE -21.08
Energy contribution -22.76
Covariance contribution 1.68
Combinations/Pair 1.04
Mean z-score -3.08
Structure conservation index 0.70
SVM decision value 0.95
SVM RNA-class probability 0.889194
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16388522 119 - 22407834
AACUCAAUUCCUCUCUUUUCUGUCCGUUUGCAACGCUGGCAGCCAAAUUGAAUUCAAAUUCAAUUUGAACUUUUCAAUUUAAGAACAGCAGAGGGAGGCUAACAACAGC-CAGAGCACAU
..(((..(((((((((.((((((((((.....)))..)))...((((((((((....))))))))))..............)))).)).)))))))((((......)))-).)))..... ( -32.60)
>DroSec_CAF1 13144 119 - 1
AACUCAAUUCCUCUCUUUUCUGUCCGUUUGCAAUGCUGGCAGCCAAAUUGAAUUCAAAUUCAAUUUGAACUUUUCAAUUUAAGAAGAGCAGAGGGAGGAUAACAACAGC-CAGAGCACAU
........((((((((((.(((((.((.......)).))))).((((((((((....))))))))))..((((((.......)))))).))))))))))........((-....)).... ( -31.70)
>DroSim_CAF1 10163 119 - 1
AACUCAAUUCCUCUCUUUUCUGUCCGUUUGCAAUGCUGCCAGCCAAAUUGAAUUCAAAUUCAAUUUGAACUUUUCAAUUUAAGGAGAGCAGAGGGAGGAUAACAACAGC-CAGAGCACAU
........((((((((((.((.((((((.(((....))).)))((((((((((....))))))))))...............))).)).))))))))))........((-....)).... ( -35.20)
>DroEre_CAF1 10036 103 - 1
AACUCAAUUCCUCUCUUUUCUGUCCAUUUGCAAUG-UGGCAGCCAAAUUGAAUUCAAAUUCAAUUUGAACUUUUCAAUUUGAGCAGAGCAGA-------------CAGC---CAGCGCAU
..................((((..(...(((....-..)))((((((((((((((((((...)))))))...))))))))).)).)..))))-------------..((---....)).. ( -22.70)
>DroYak_CAF1 13441 120 - 1
AACUCAAUUCCUCUCUUUUCUGUCCAUUUGCAAUGCUGGCAGCCAAAUUGAAUUCAAAUUCAAUUUGAACUUUUCAAUUUAAGAACUGCAGAGGGAGGAUAAGAACAGCACAGAGCACAU
...((...((((((((((..(((......)))......((((.((((((((((....))))))))))..(((........)))..))))))))))))))...))...((.....)).... ( -28.60)
>consensus
AACUCAAUUCCUCUCUUUUCUGUCCGUUUGCAAUGCUGGCAGCCAAAUUGAAUUCAAAUUCAAUUUGAACUUUUCAAUUUAAGAAGAGCAGAGGGAGGAUAACAACAGC_CAGAGCACAU
.......((((((((((((((......((((.......)))).((((((((((....))))))))))..............))))))).)))))))........................ (-21.08 = -22.76 +   1.68)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,388,561 – 16,388,681
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.92
Mean single sequence MFE -26.55
Consensus MFE -21.84
Energy contribution -22.04
Covariance contribution 0.20
Combinations/Pair 1.06
Mean z-score -1.49
Structure conservation index 0.82
SVM decision value 0.43
SVM RNA-class probability 0.734837
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16388561 120 + 22407834
AAAUUGAAAAGUUCAAAUUGAAUUUGAAUUCAAUUUGGCUGCCAGCGUUGCAAACGGACAGAAAAGAGAGGAAUUGAGUUAACUGCGUAUGUAAUGGGUAGUUCACAGGAUGCAGGCCAU
.........(((.((((((((((....)))))))))))))(((.(((((.....(.....)................((.((((((.(((...))).)))))).))..))))).)))... ( -26.00)
>DroSec_CAF1 13183 120 + 1
AAAUUGAAAAGUUCAAAUUGAAUUUGAAUUCAAUUUGGCUGCCAGCAUUGCAAACGGACAGAAAAGAGAGGAAUUGAGUUAACUGCGUAUGUAAUGGGUAGUUCACAGGAUGCAGGCCAU
.........(((.((((((((((....)))))))))))))(((.(((((.....(.....)................((.((((((.(((...))).)))))).))..))))).)))... ( -26.40)
>DroSim_CAF1 10202 106 + 1
AAAUUGAAAAGUUCAAAUUGAAUUUGAAUUCAAUUUGGCUGGCAGCAUUGCAAACGGACAGAAAAGAGAGGAAUUGAGUUAACUGCGUAUGUAAUGGGUA--------------GGCCAU
(((((((...((((((((...)))))))))))))))((((.((..(((((((.(((..(((......((....)).......)))))).))))))).)).--------------)))).. ( -26.22)
>DroEre_CAF1 10060 119 + 1
AAAUUGAAAAGUUCAAAUUGAAUUUGAAUUCAAUUUGGCUGCCA-CAUUGCAAAUGGACAGAAAAGAGAGGAAUUGAGUUAACUGCGUGUGUAAUGGGUAGUUCGCAGGAUGCAGGACAU
..........(((((((((((((....)))))))))(((((((.-(((((((.(((..(((......((....)).......)))))).)))))))))))))).((.....)).)))).. ( -28.22)
>DroYak_CAF1 13481 120 + 1
AAAUUGAAAAGUUCAAAUUGAAUUUGAAUUCAAUUUGGCUGCCAGCAUUGCAAAUGGACAGAAAAGAGAGGAAUUGAGUUAACUGCGUAUGUAAUGGGUAGUUCACAGGAUGCAGGCCAU
.........(((.((((((((((....)))))))))))))(((.(((((.(....).....................((.((((((.(((...))).)))))).))..))))).)))... ( -25.90)
>consensus
AAAUUGAAAAGUUCAAAUUGAAUUUGAAUUCAAUUUGGCUGCCAGCAUUGCAAACGGACAGAAAAGAGAGGAAUUGAGUUAACUGCGUAUGUAAUGGGUAGUUCACAGGAUGCAGGCCAU
.............((((((((((....))))))))))((((((..(((((((.(((..(((......((....)).......)))))).))))))))))))).................. (-21.84 = -22.04 +   0.20)

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 11:52:13 2006