Locus 3976

Sequence ID 2R_DroMel_CAF1
Location 13,119,384 – 13,119,500
Length 116
Max. P 0.989166
window6416

overview

Window 6

Location 13,119,384 – 13,119,500
Length 116
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 77.88
Mean single sequence MFE -35.00
Consensus MFE -25.68
Energy contribution -26.36
Covariance contribution 0.68
Combinations/Pair 1.04
Mean z-score -2.34
Structure conservation index 0.73
SVM decision value 2.15
SVM RNA-class probability 0.989166
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13119384 116 + 20766785
AGAAAAAGUAGCUUGCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUC-UCCCAACUGAGCUAUUUCGGCAGAUGUGGCGAUAGUACAGAAUAUCGGAUU
............((((((((((((((.......))))).....((((((.....)))))).((((-........))))..)))))))))......(((((........))))).... ( -35.20)
>DroSec_CAF1 13458 112 + 1
--AAAAAGGAGAUUGCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUC-UCCCAACUGAGCUAUUUCGGCAGAUGUUACGAGCGUGCAGAAUAUGGCA--
--..........((((((((((((((.......))))).....((((((.....)))))).((((-........))))..)))))))))((((.....))))((........)).-- ( -33.00)
>DroSim_CAF1 14844 115 + 1
AAAAAAAGGAAAUUGCCGAAACCCGGGAUUGAACCGGGGACCUUUAUAUCUUCAUUCUAACGCUCCUCCCCACAGAGCUAUUUCGGCNNNNNNNNNNNNNNNNNNNNNNNNNNNN--
..............((((((((((((.......))))).......................((((.........))))..)))))))............................-- ( -23.60)
>DroEre_CAF1 13584 116 + 1
ACAAAAAUUGAAUUGCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUC-UCCCAACUGAGCUAUUUCGGCAGUUGCAGUGAUGGUGCCGAAAAUGGCACU
.((...((((((((((((((((((((.......))))).....((((((.....)))))).((((-........))))..))))))))))).))))..))(((((......))))). ( -44.80)
>DroYak_CAF1 13452 116 + 1
AAAAAUAAUGAUUUGCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUC-UCCCAACUGAGCUAUUUCGGCGGAUGCUAAGGUUCUGCCUAAAGUGGCACU
..........((((((((((((((((.......))))).....((((((.....)))))).((((-........))))..)))))))))))(((((((.....)))....))))... ( -38.40)
>consensus
AAAAAAAGUAAAUUGCCGAAACCCGGGAUUGAACCGGGGACCUUUAGAUCUUCAGUCUAACGCUC_UCCCAACUGAGCUAUUUCGGCAGAUGCUACGAU_GUGCAGAAAAUGGCA_U
............((((((((((((((.......))))).....((((((.....)))))).((((.........))))..)))))))))............................ (-25.68 = -26.36 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:43 2006