Locus 5356

Sequence ID 3R_DroMel_CAF1
Location 14,061,491 – 14,061,581
Length 90
Max. P 0.970845
window8732

overview

Window 2

Location 14,061,491 – 14,061,581
Length 90
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 78.81
Mean single sequence MFE -35.93
Consensus MFE -20.02
Energy contribution -21.72
Covariance contribution 1.70
Combinations/Pair 1.24
Mean z-score -2.82
Structure conservation index 0.56
SVM decision value 1.67
SVM RNA-class probability 0.970845
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14061491 90 - 27905053
GAGAUGUUCUGGGAACGGA-AGAGCACGACGGGAUGAUGGGGUCCUGGGAACCGGGACUUGCAUCUCUACUGGCUCUCAGUUCUUAGAGCG
.....(((((((((((.((-.((((.....((((((...(((((((((...))))))))).)))))).....)))))).))))))))))). ( -43.70)
>DroSec_CAF1 9185 90 - 1
GAGAUGUUCUGGGAACGGAAAGAGCACGACGGGAUGAUGGGGUCCUGGGAAC-GGGACUUGCACCUCCAGUGGCUCUCAGUUCUUAGACCG
.....(.(((((((((....(((((.((...(((.(.((((((((((....)-))))))).))).)))..)))))))..))))))))).). ( -36.80)
>DroSim_CAF1 9441 89 - 1
GAGAUGUUCUGGGAACGGA-UGAGCACGACGGGAUGAUGGGGUCCUGGGAAC-GGGACAGGCACCUCUACUGGCUCUCAGUUCUUAGAGCG
.....(((((((((((.((-.((((.....(((.((.....((((((....)-)))))...)).))).....)))))).))))))))))). ( -38.40)
>DroEre_CAF1 9361 85 - 1
GAGAUGUUCCGGGAACGGA-AGAGCACGGCAGG---AUGGGGUCCUGGGAAC-GGGACU-GCGCCUCUACGGGUUCUCAGUUCCUAGAUCG
.....(.((..(((((.((-.((((.((..(((---.((.(((((((....)-))))))-.)))))...)).)))))).)))))..)).). ( -37.60)
>DroYak_CAF1 9122 86 - 1
GAGAUAUUCUGGGAACGGA-AGAGCACGGCAGG---AUGGGGUCCUGGGAAC-GGGACUUUCGCCUCUACGGGCGAUCAGUUCCUAGUUCG
..((....((((((((.((-...((.((..(((---..(((((((((....)-))))))))..)))...)).))..)).)))))))).)). ( -36.10)
>DroAna_CAF1 10693 78 - 1
CCG-UGGUCUAGGAACGGA-A-AGCGAUACGGAAU-AUUAGGUCCUGGGAAC-GGGACUUGGAUUUCUACUGGUUC--------AAGAUUU
...-((..((((...((..-.-..))....(((((-.((((((((((....)-))))))))))))))..))))..)--------)...... ( -23.00)
>consensus
GAGAUGUUCUGGGAACGGA_AGAGCACGACGGGAU_AUGGGGUCCUGGGAAC_GGGACUUGCACCUCUACUGGCUCUCAGUUCUUAGAUCG
.......(((((((((....(((((.....(((......((((((((....).))))))).....)))....)))))..)))))))))... (-20.02 = -21.72 +   1.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:47 2006