Locus 5310

Sequence ID 3R_DroMel_CAF1
Location 13,880,009 – 13,880,115
Length 106
Max. P 0.774185
window8662

overview

Window 2

Location 13,880,009 – 13,880,115
Length 106
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 82.64
Mean single sequence MFE -37.62
Consensus MFE -23.91
Energy contribution -24.23
Covariance contribution 0.32
Combinations/Pair 1.08
Mean z-score -2.07
Structure conservation index 0.64
SVM decision value 0.54
SVM RNA-class probability 0.774185
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13880009 106 - 27905053
AGCUGCGAUCGGCAGCCU-CGAGGAGAAGCACUUUUGGGUAGCCAAGAGGAGCCCGGU--------UUGGAGCCAGGUUGGAGCCAGGAGGCUUGCCCAGGAGUGCAUAAAAUUU
.(((((.....)))))((-(...)))..((((((((((((((((.....(.((((((.--------.((....))..)))).)))....))).)))))))))))))......... ( -45.80)
>DroSec_CAF1 143900 93 - 1
AGCUGCGAUCGGCAGCCUUGGAGGAGCAGCACUUUUG-GUAGC-AAGAGGA--------------------GCCAGGUUGCAGCCGAGAGGCUUGCCCAGGAGUGCAUAAAAUUU
.(((((.....)))))............(((((((((-(..((-((.....--------------------((......)).(((....)))))))))))))))))......... ( -34.30)
>DroSim_CAF1 152588 94 - 1
AGCUGCGAUCGGCAGCCUUCGAGGAGGAGCACUUUUG-GUAGCCAAGAGGA--------------------GCCAGGUUGGAGCCGAGAGGCUUGCCCAGGAGUGCAUAAAAUUU
.(((((.....)))))(((....)))..(((((((((-(.((((....((.--------------------.((.....))..))....))))...))))))))))......... ( -37.60)
>DroEre_CAF1 144093 102 - 1
AGCUGCGAUCGGCAGCCC-CGAGGAGGAGCACUUUUG-GAAGCCAAGAGGAGCCAGGAG----------GAGCCAGG-UGGAGCCAGGAGGAUUGCCCAGGAGUGCAUAAAAUUU
.(((((.....))))).(-(.....)).(((((((((-(...(((...((..((....)----------)..))...-)))..((....)).....))))))))))......... ( -35.00)
>DroYak_CAF1 160425 112 - 1
AGCAGCGAUCGGCAGCCC-CGAGGAGAAGUACUUUUG-GCAGCCAAGAGGAGCCAGGAGGAGCUAUGAGGAGCCAGG-UGGAGCCAGGAGGAUUGCCCAGGAGUGCAUAAAAUUU
....(((.((((((((((-(.......(((.((((((-((..((....)).))))))))..)))....((..((...-.))..)).)).)).)))))...)).)))......... ( -35.40)
>consensus
AGCUGCGAUCGGCAGCCU_CGAGGAGAAGCACUUUUG_GUAGCCAAGAGGAGCC_GG____________GAGCCAGGUUGGAGCCAGGAGGCUUGCCCAGGAGUGCAUAAAAUUU
.(((((.....)))))............(((((((((.((((((....((......................)).((......))....)).)))).)))))))))......... (-23.91 = -24.23 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:42 2006