Locus 5818

Sequence ID 2L_DroMel_CAF1
Location 16,485,531 – 16,485,651
Length 120
Max. P 0.977802
window9234 window9235

overview

Window 4

Location 16,485,531 – 16,485,651
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.53
Mean single sequence MFE -39.65
Consensus MFE -31.82
Energy contribution -32.76
Covariance contribution 0.94
Combinations/Pair 1.11
Mean z-score -2.34
Structure conservation index 0.80
SVM decision value 1.07
SVM RNA-class probability 0.909617
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16485531 120 + 22407834
GUGAUGCGCCCCAAUGUGAUUAUUGUCCCCCUUGGGCUACUGCAAGAGCCAUUCUUUCAGCUGGAAAGCGAAGAUGUCUUCAAAUACAGCCUGAUGGGAUAUAUUAUGGCACAUCACUUG
((((((.(((.....(((((...((((((..(..((((..((.(((((...))))).))(((....)))((((....))))......))))..).)))))).)))))))).))))))... ( -41.80)
>DroSec_CAF1 110520 120 + 1
GUGAUGCGGCCCAAUGUGAUUAUUGUCCCACUUGGGCUACUGCAGGAGCCAUUCUUUCAGCUGGACAGCGAAGAUGUCUUCAAAUACAGCCUGAUGGGAUAUAUUUUGGCACAUCACUUG
((((((..((((((((....)))))(((((.(..((((......((((.(((.((((..(((....)))))))))).))))......))))..))))))........))).))))))... ( -39.90)
>DroSim_CAF1 107795 120 + 1
GUGAUGCGCCCCAAUGUGAUUAUUGUCCCACUUGGGCUACUGCAGGAGCCAUUCUUUCAGCUGGAAAGCGAUGAUGUCUUCAAGUACAGCCUGAUGGGAUAUAUUUUGGCACAUCACUUG
((((((.(((..(((((.......((((((.(..(((((((...((((.((((...((.(((....))))).)))).)))).)))..))))..))))))))))))..))).))))))... ( -44.61)
>DroYak_CAF1 112574 120 + 1
AUGUUGCGCCCGAAUGUGAUUAUAGUCCCACUUGGGCUGCUGCAAGAACCAUUUUUCCAGCCGGAUAGCGAUGAAGUUUUCAAAUACAGCCUGAUGGGAUAUAUUUUGGGACAUCACUUG
.((.((..((((((......((((.(((((.(..((((((((.((((.....)))).))))..((.(((......))).))......))))..)))))))))).)))))).)).)).... ( -32.30)
>consensus
GUGAUGCGCCCCAAUGUGAUUAUUGUCCCACUUGGGCUACUGCAAGAGCCAUUCUUUCAGCUGGAAAGCGAAGAUGUCUUCAAAUACAGCCUGAUGGGAUAUAUUUUGGCACAUCACUUG
((((((.(((..(((((.......((((((.(..((((.(((.(((((...))))).))).........((((....))))......))))..))))))))))))..))).))))))... (-31.82 = -32.76 +   0.94)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,485,531 – 16,485,651
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.53
Mean single sequence MFE -38.08
Consensus MFE -32.30
Energy contribution -33.80
Covariance contribution 1.50
Combinations/Pair 1.11
Mean z-score -2.69
Structure conservation index 0.85
SVM decision value 1.80
SVM RNA-class probability 0.977802
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16485531 120 - 22407834
CAAGUGAUGUGCCAUAAUAUAUCCCAUCAGGCUGUAUUUGAAGACAUCUUCGCUUUCCAGCUGAAAGAAUGGCUCUUGCAGUAGCCCAAGGGGGACAAUAAUCACAUUGGGGCGCAUCAC
...((((((((((........((((....((((......((((....))))........((((.((((.....)))).))))))))....)))).((((......)))).)))))))))) ( -40.70)
>DroSec_CAF1 110520 120 - 1
CAAGUGAUGUGCCAAAAUAUAUCCCAUCAGGCUGUAUUUGAAGACAUCUUCGCUGUCCAGCUGAAAGAAUGGCUCCUGCAGUAGCCCAAGUGGGACAAUAAUCACAUUGGGCCGCAUCAC
...((((((((((........((((((..((((......((((....))))(((((..((((........))))...)))))))))...))))))((((......)))))).)))))))) ( -41.50)
>DroSim_CAF1 107795 120 - 1
CAAGUGAUGUGCCAAAAUAUAUCCCAUCAGGCUGUACUUGAAGACAUCAUCGCUUUCCAGCUGAAAGAAUGGCUCCUGCAGUAGCCCAAGUGGGACAAUAAUCACAUUGGGGCGCAUCAC
...((((((((((........((((((..(((((.............(((..(((((.....))))).)))((....))..)))))...))))))((((......)))).)))))))))) ( -39.10)
>DroYak_CAF1 112574 120 - 1
CAAGUGAUGUCCCAAAAUAUAUCCCAUCAGGCUGUAUUUGAAAACUUCAUCGCUAUCCGGCUGGAAAAAUGGUUCUUGCAGCAGCCCAAGUGGGACUAUAAUCACAUUCGGGCGCAACAU
..(((((((.....(((((((.((.....)).)))))))........))))))).....((.((((......)))).)).((.((((.((((.((......)).)))).))))))..... ( -31.02)
>consensus
CAAGUGAUGUGCCAAAAUAUAUCCCAUCAGGCUGUAUUUGAAGACAUCAUCGCUUUCCAGCUGAAAGAAUGGCUCCUGCAGUAGCCCAAGUGGGACAAUAAUCACAUUGGGGCGCAUCAC
...((((((((((........((((((..(((((.....((((....))))((.....((((........))))...))..)))))...))))))((((......)))).)))))))))) (-32.30 = -33.80 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:47 2006