Locus 4550

Sequence ID 2R_DroMel_CAF1
Location 14,882,715 – 14,882,835
Length 120
Max. P 0.956219
window7294 window7295

overview

Window 4

Location 14,882,715 – 14,882,835
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 73.94
Mean single sequence MFE -35.37
Consensus MFE -19.71
Energy contribution -19.47
Covariance contribution -0.24
Combinations/Pair 1.61
Mean z-score -1.47
Structure conservation index 0.56
SVM decision value 0.07
SVM RNA-class probability 0.567134
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14882715 120 + 20766785
AUGCUCGUGUGAUCCGGUCCUGAGAUCUCAAGAUCAAACCUAAUAUUUGUAUCUGAAUUACUCGAUUUUUCCAAAAUAGUCAGAGUGGGAAUAUAUUCCCUAUUUGGCUCGGGACCAGGA
............(((((((((((((((....))))........(((((......(((((....))))).....)))))((((((..(((((....)))))..)))))))))))))).))) ( -34.10)
>DroPse_CAF1 61793 120 + 1
AUACUCGUGUGGUCGGGCCCCGAGAUCUCUAGUGUGAACUUUAUGUUUUUAGCAGAGCUGCUGGACUUGUCGAUUAUGCUCAAUGUGGGCAAGUAGUCCUUGUUGGGCUCUGGGCCCGGG
.(((....))).(((((((((((.(..((((((..((((.....))))..(((...)))))))))..).))).....((((((((.((((.....)))).))))))))...)))))))). ( -43.70)
>DroGri_CAF1 60787 120 + 1
AUGCUUGUAUGAUCCGGUCCUGAAACCUCCAAAGUGAAUAUAAUAUUUGUCAUCGAAGUGCUCUCUUUGUUUAAUAUUUUCAACGUUGGCAUAUAGGCUUUGUUGGGCUCGGGACCAGGC
.............((((((((((..((..((((((..........((((....))))(((((..(.(((...........))).)..)))))....))))))..))..)))))))).)). ( -32.80)
>DroSim_CAF1 56597 120 + 1
AUGCUCGUGUGAUCCGGCCCUGAGAUCUCAAGAUCAAACUUAAUAUUUGUAGCUGAUUUACUCGAUUUUUCCAAAAUCGUCAGAGUGGGAAUGUAUUCCCUAUUUGGCUCGGGGCCAGGU
.............((((((((((((((....))))............................(((((.....)))))((((((..(((((....)))))..)))))))))))))).)). ( -35.40)
>DroYak_CAF1 56723 120 + 1
AUGCUCGUGUGAUCUGGCCCUGAGAUCUCCAGAUCAAAUUUAAUAUUUGUAUCCGAUUUGCUCGAUUUAUCCAAAAUAGUCAGUGUGGGAAUAUACUCCCUAUUUGGCUCGGGACCAGGC
............(((((.((((((.......((.((((((..(((....)))..)))))).)).......(((((.(((..((((((....))))))..)))))))))))))).))))). ( -32.00)
>DroAna_CAF1 63280 120 + 1
AUGCUGAUGUGAUCAGGCCCAGAGAUCUCCAGAUCGAAUUGUAUGUGGGUAGCAGAUUUACUCGACUUGUCCAGAAUUUGAAGAGUAGGAAUAUAUCCCUUGUUGGGUUCUGGGCCAGGC
....(((.((((((..(((((.(((((....))))........).)))))....)).))))))).((.((((((((((..(.(((..(((.....)))))).)..)))))))))).)).. ( -34.20)
>consensus
AUGCUCGUGUGAUCCGGCCCUGAGAUCUCCAGAUCAAACUUAAUAUUUGUAGCAGAUUUACUCGAUUUGUCCAAAAUAGUCAGAGUGGGAAUAUAUUCCCUAUUGGGCUCGGGACCAGGC
...............(((((((((...(((((..(((((.....))))).....................................((((......))))..)))))))))))))).... (-19.71 = -19.47 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,882,715 – 14,882,835
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 73.94
Mean single sequence MFE -31.44
Consensus MFE -18.43
Energy contribution -18.60
Covariance contribution 0.17
Combinations/Pair 1.67
Mean z-score -1.95
Structure conservation index 0.59
SVM decision value 1.46
SVM RNA-class probability 0.956219
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14882715 120 - 20766785
UCCUGGUCCCGAGCCAAAUAGGGAAUAUAUUCCCACUCUGACUAUUUUGGAAAAAUCGAGUAAUUCAGAUACAAAUAUUAGGUUUGAUCUUGAGAUCUCAGGACCGGAUCACACGAGCAU
..(((((((.(((((.(((((((((....)))))..(((((....(((((.....)))))....)))))......)))).)))))((((....))))...)))))))............. ( -33.80)
>DroPse_CAF1 61793 120 - 1
CCCGGGCCCAGAGCCCAACAAGGACUACUUGCCCACAUUGAGCAUAAUCGACAAGUCCAGCAGCUCUGCUAAAAACAUAAAGUUCACACUAGAGAUCUCGGGGCCCGACCACACGAGUAU
..(((((((.(((..(..((((.....)))).......(((((......((....)).((((....))))...........))))).......)..))).)))))))............. ( -31.80)
>DroGri_CAF1 60787 120 - 1
GCCUGGUCCCGAGCCCAACAAAGCCUAUAUGCCAACGUUGAAAAUAUUAAACAAAGAGAGCACUUCGAUGACAAAUAUUAUAUUCACUUUGGAGGUUUCAGGACCGGAUCAUACAAGCAU
..(((((((.(((.((..(((((...(((((....(((((((.....................)))))))........)))))...)))))..)).))).)))))))............. ( -26.30)
>DroSim_CAF1 56597 120 - 1
ACCUGGCCCCGAGCCAAAUAGGGAAUACAUUCCCACUCUGACGAUUUUGGAAAAAUCGAGUAAAUCAGCUACAAAUAUUAAGUUUGAUCUUGAGAUCUCAGGGCCGGAUCACACGAGCAU
..(((((((.(((.......(((((....))))).(((.((((((((.....)))))).............(((((.....))))).))..)))..))).)))))))............. ( -33.50)
>DroYak_CAF1 56723 120 - 1
GCCUGGUCCCGAGCCAAAUAGGGAGUAUAUUCCCACACUGACUAUUUUGGAUAAAUCGAGCAAAUCGGAUACAAAUAUUAAAUUUGAUCUGGAGAUCUCAGGGCCAGAUCACACGAGCAU
(((((((((.(((.......(((((....)))))..........(((..(((...((((.....))))...(((((.....))))))))..)))..))).))))))).((....)))).. ( -32.20)
>DroAna_CAF1 63280 120 - 1
GCCUGGCCCAGAACCCAACAAGGGAUAUAUUCCUACUCUUCAAAUUCUGGACAAGUCGAGUAAAUCUGCUACCCACAUACAAUUCGAUCUGGAGAUCUCUGGGCCUGAUCACAUCAGCAU
((..((((((((.(((.....)))...........(((((((.....))))((..((((((....................))))))..)))))...))))))))((((...)))))).. ( -31.05)
>consensus
GCCUGGCCCCGAGCCAAACAAGGAAUAUAUUCCCACUCUGACAAUUUUGGACAAAUCGAGCAAAUCAGCUACAAAUAUUAAAUUCGAUCUGGAGAUCUCAGGGCCGGAUCACACGAGCAU
..(((((((.(((.......(((((....))))).................((.(((((((....................))))))).)).....))).)))))))............. (-18.43 = -18.60 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:51 2006