Locus 1317

Sequence ID 2R_DroMel_CAF1
Location 5,102,246 – 5,102,363
Length 117
Max. P 0.822259
window2286

overview

Window 6

Location 5,102,246 – 5,102,363
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.54
Mean single sequence MFE -30.58
Consensus MFE -14.36
Energy contribution -14.96
Covariance contribution 0.60
Combinations/Pair 1.25
Mean z-score -1.90
Structure conservation index 0.47
SVM decision value 0.68
SVM RNA-class probability 0.822259
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5102246 117 + 20766785
-UCUCAUCUGCAAUAUAAAUUGCGUUAUUUGUUUGUCCCUAUCGGCAGCAAGAUAGACGGGUAGUUUUACCGUAAAUUAGCGGUAUUAAGAAUUAUCGAUAUGUAAGGAUCCUUACA-U-
-(((.(((((((((....)))))......((((.(((......))))))))))))))..((((((((((((((......))))))....))))))))...(((((((....))))))-)- ( -30.10)
>DroSec_CAF1 8802 117 + 1
AUCUCAUCUGCAUUAUAAAUUGCGGUAUUUGUUUGGUCCUAUCGGCAUAACGAUAGUCGGGUAGU--UACCGUAAAGUAGCGGUAUUAGGAUUUAUGGAUAUGUGAGAAUCCUAAAC-UA
.(((((((((((........)))))((((..(..((((((((((((.........))))).....--((((((......)))))).))))))).)..)))).)))))).........-.. ( -32.60)
>DroSim_CAF1 8873 119 + 1
AUCUCAUCUGCAUUAUAAAUUGCGGUAUUUGUUUGGUCCUAUCGGCAGAACGAUAGUCGGGUAGUUUUACCGUGAAGUAGCGGUAUUAGGAAUUAUCGAUAUGUAAGGAUCCUAACC-UA
.......(((((........))))).....(((.((((((((((......)))))(((((.((((((((((((......))))))....)))))))))))......)))))..))).-.. ( -30.80)
>DroEre_CAF1 8750 104 + 1
---------------CAAAAGGCGGUAUUUGUUUGGGCCUAUCGGCAGAGCGAUAGGCGAGUGCUUAUACCGUAAAGUAGUAGUAAACA-AAUUAUCGAUAUGUAGGGAUUCUAACAUUA
---------------.......(((((((((((((.((((((((......)))))))).(.(((((........))))).)..))))))-)).)))))..((((.((....)).)))).. ( -27.30)
>DroYak_CAF1 8724 104 + 1
---------------CCAAAGCCGGUAUUUGUUUGAGCCUAUCGGCAGCACGAUAGGCAAGUGGUUGUACCGUGUAGUGGUGGUACCAA-AAAUAUCGAUGUGUAAGAAUCCUAACAUUA
---------------.......((((((((......((((((((......))))))))...((((..(((((.....)))))..)))).-))))))))..((((.((....)).)))).. ( -32.10)
>consensus
_UCUCAUCUGCA_UAUAAAUUGCGGUAUUUGUUUGGGCCUAUCGGCAGAACGAUAGGCGGGUAGUUUUACCGUAAAGUAGCGGUAUUAAGAAUUAUCGAUAUGUAAGGAUCCUAACA_UA
...................((((((((.((..(((...((((((......)))))).)))..))...)))))))).....(((((........)))))...................... (-14.36 = -14.96 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:04 2006