Locus 2562

Sequence ID 3R_DroMel_CAF1
Location 6,936,449 – 6,936,557
Length 108
Max. P 0.657138
window4181

overview

Window 1

Location 6,936,449 – 6,936,557
Length 108
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 93.51
Mean single sequence MFE -33.50
Consensus MFE -26.62
Energy contribution -28.34
Covariance contribution 1.72
Combinations/Pair 1.06
Mean z-score -1.58
Structure conservation index 0.79
SVM decision value 0.26
SVM RNA-class probability 0.657138
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6936449 108 - 27905053
AAAUGGAA-AAAGGAAAAGGGAGCUGGCUGGUCCUGGUGGUCCUGCUGUUCCU---GUUAC------UGUUCCUGCUGUUUAUAUAGCCUGGUCUACGUGUAUAAAUAACGGUAACAU
........-.........((((((.(((.((.((....)).)).)))))))))---(((((------((((((.(((((....)))))..))...............))))))))).. ( -31.96)
>DroSec_CAF1 85103 114 - 1
AAAUGGAA-AAAGGAAAAGGGAGCUGGUUGGUCCUGUUGGUCCUGCUGUUCCU---GUUACUGUUGCUGUUCCUGCUGUUUAUAUAGCCUGGUCUACGUGUAUAAAUAACGGUAACAU
....((((-..((((...((((.(.....).)))).....))))....))))(---((((((((((((((.((.(((((....)))))..))...))).)))......))))))))). ( -33.80)
>DroSim_CAF1 86392 115 - 1
AAAUGAAAAAAAGGAAAACGGAGCUGGUUGGUCCUGUUGGUCCUGCUGUUCCU---GUUACUGUUACUGUUCCCGCUGUUUAUAUAGCCUGGUCUACGUGUAUAAAUAACGGUAACAU
...................(((((.(((.((.((....)).)).))))))))(---((((((((((((((.((.(((((....)))))..))...))).)))......))))))))). ( -31.90)
>DroEre_CAF1 86989 114 - 1
AAAUGGAA-AAAGGAAAAGGGAGCUGGUUGGUCCUGUUGGUCCUGCUGUUCCU---GUUACUGUUACUGUUCCUGCUGUUUAUAUAGCCUGGUCUACGUGUAUAAAUAACGGUAACAU
....((((-..((((...((((.(.....).)))).....))))....))))(---((((((((((((((.((.(((((....)))))..))...))).)))......))))))))). ( -33.80)
>DroYak_CAF1 87088 117 - 1
AAAUGGAA-AAAGGAAAAGGGCGCUGGUUGGUCCUGUUGGUCCUGCUGGUCCUGCUGUUCCUGUUACUGUUCCUGCUGUUUAUAUAGCCUGGUCUACGUGUAUAAAUAACGGUAACAU
........-..(((((..(((.((..((.((.((....)).)).))..)))))....)))))(((((((((((.(((((....)))))..))...............))))))))).. ( -36.06)
>consensus
AAAUGGAA_AAAGGAAAAGGGAGCUGGUUGGUCCUGUUGGUCCUGCUGUUCCU___GUUACUGUUACUGUUCCUGCUGUUUAUAUAGCCUGGUCUACGUGUAUAAAUAACGGUAACAU
..................((((((.(((.((.((....)).)).)))))))))...((((((((((((((.((.(((((....)))))..))...))).)))......)))))))).. (-26.62 = -28.34 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:22 2006