Locus 1346

Sequence ID 2R_DroMel_CAF1
Location 5,201,285 – 5,201,387
Length 102
Max. P 0.863882
window2327

overview

Window 7

Location 5,201,285 – 5,201,387
Length 102
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 74.73
Mean single sequence MFE -29.49
Consensus MFE -19.80
Energy contribution -20.38
Covariance contribution 0.58
Combinations/Pair 1.33
Mean z-score -1.40
Structure conservation index 0.67
SVM decision value 0.84
SVM RNA-class probability 0.863882
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5201285 102 + 20766785
AUCGAAGUUAUUGGCCGAGGCGGCGGCUGCUGCCUCAUUGGUUUCUAUUUUCACGCCCGAACGGGGUUUAAACUCGGGCACCUAUAAAUCA--------AUA-AUAUCAG------A
...((.((((((((((((((((((....))))))))...)))............((((((.............))))))..........))--------)))-)).))..------. ( -33.92)
>DroVir_CAF1 107097 109 + 1
AUCAAAGUUAUUGGCUGCCGCAGCGGCGGCUGCCUCAUUUGUCUCAAUCUUAACGCCAGAACGUGGCUUAAAUUCGGGCACCUACAACAGG-AAAUUG--UGUACAUGAG-----AU
(((.........(((.(((((....))))).)))((((.(((((.(((.((((.((((.....))))))))))).)))))..((((.(((.-...)))--)))).)))))-----)) ( -30.10)
>DroGri_CAF1 95099 105 + 1
AUCAUAAUUAUUGGCCGAGGCGGCGGCAGCGGCCUCAUUUGUCUCAAUCUUGACGCCAGAGCGUGGCCUAAAAUCGGGCACCUAAAAUGGA-AA------UGAAUAUAAA-----UA
.((((.....(((((.(((((.((....)).)))))....(((........))))))))((.(((.((.......)).)))))........-.)------))).......-----.. ( -33.30)
>DroEre_CAF1 78851 102 + 1
AUCAAAGUUAUUGGCCGAGGCGGCGGCUGCUGCCUCAUUGGUCUCAAUUUUUACGCCCGAACGAGGUUUAAACUCAGGCACCUAAAAAUAA--------AUA-AUAUUAG------A
......((((((((((((((((((....))))))))...))))...(((((((.(((.....(((.......))).)))...))))))).)--------)))-)).....------. ( -27.70)
>DroWil_CAF1 109350 114 + 1
AUCGAAAUGAUUGGCCGAUGCGGCAGCAGCAGCCUCAUUAGUCUCAAUUUUGACACCGGAACGGGGCUUAAAUUCGGGUACCUAAAUUAAAA-AUGGGAAUAAUUAUAAGUAUUG--
.(((((((....(((..(((.(((.......))).)))..)))...))))))).(((.(((...........))).))).((((........-.)))).................-- ( -23.20)
>DroYak_CAF1 77575 102 + 1
AUCAAAGUUAUUGGCCGAGGCGGCAGCUGCUGCCUCAUUGGUCUCGAUUUUCACGCCCGAACGGGGUUUAAACUCAGGCACCUAUACAAAA--------AUA-UUAUUAG------A
......((.....(((((((((((....)))))))).........(((((..((.(((....)))))..))).)).)))......))....--------...-.......------. ( -28.70)
>consensus
AUCAAAGUUAUUGGCCGAGGCGGCGGCUGCUGCCUCAUUGGUCUCAAUUUUCACGCCCGAACGGGGCUUAAACUCGGGCACCUAAAAAAAA________AUA_AUAUAAG______A
.............(((((((((((....))))))))..................((((.....)))).........)))...................................... (-19.80 = -20.38 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:44 2006