Locus 5216

Sequence ID 2R_DroMel_CAF1
Location 16,973,578 – 16,973,669
Length 91
Max. P 0.806088
window8331

overview

Window 1

Location 16,973,578 – 16,973,669
Length 91
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 86.29
Mean single sequence MFE -24.06
Consensus MFE -18.20
Energy contribution -18.80
Covariance contribution 0.60
Combinations/Pair 1.09
Mean z-score -1.92
Structure conservation index 0.76
SVM decision value 0.63
SVM RNA-class probability 0.806088
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16973578 91 - 20766785
AAA----AAUAGGCGACGGAGGUGCUGGAGCUGGUUUGUGG-------AUGACAGAGGGGCUGCAGAAGAUGUAGGACGAAGAGUUCGUAGAACUUUUGCGC
...----.....(((.(((((((.(((.((((..(((((..-------...)))))..)))).)))........((((.....)))).....)))))))))) ( -26.90)
>DroSec_CAF1 70396 91 - 1
AAA----AAAAGGCGACAGAGGUGCUGGAGCUGGUUUGUGG-------AUGGCAGAGGGGCUGCAGAAGAUGUAGGACGAAGAGUUCGUAGAACUUUUGCAC
..(----((..(((..(((.....)))..)))..)))....-------...(((((((..(((((.....)...((((.....))))))))..))))))).. ( -25.10)
>DroSim_CAF1 75739 92 - 1
AAA---AAAAAGGCGACGGAGGUGCUGGAGCUGGUUUGUGG-------AUGGCAGAGGGGCUGCAGAAGAUGUAGGACGAAGAGUUCGUAGAACUUUUGCAC
...---(((..(((..(((.....)))..)))..)))....-------...(((((((..(((((.....)...((((.....))))))))..))))))).. ( -24.40)
>DroEre_CAF1 71720 102 - 1
AAAUAAAAAAAGGCGACGGAGGUGCUGGAGUUGGUUUGUGGAUAUCAGAGAGCAGAGGGGCACCAGAAGAUGUAGGACGAAGAGUUCGUAGAACUUUUGCAC
............((((.((.((((((....(((.(((.((.....)).))).)))...))))))..........((((.....))))......)).)))).. ( -24.40)
>DroYak_CAF1 78497 85 - 1
--------AAAGGCGACGGAGGUGCUGGAGUUUGGUU---------AGAUGGCAGAGGGGCACCAGAAGAUGUAGGACGAAGAGUUCGUAGAACUUUUGCAC
--------....((((.((.((((((....((((.(.---------....).))))..))))))..........((((.....))))......)).)))).. ( -19.50)
>consensus
AAA____AAAAGGCGACGGAGGUGCUGGAGCUGGUUUGUGG_______AUGGCAGAGGGGCUGCAGAAGAUGUAGGACGAAGAGUUCGUAGAACUUUUGCAC
...........(((..(((.....)))..)))...................(((((((..(((((.....)...((((.....))))))))..))))))).. (-18.20 = -18.80 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:19 2006