Locus 3606

Sequence ID 2R_DroMel_CAF1
Location 11,986,639 – 11,986,744
Length 105
Max. P 0.610787
window5875

overview

Window 5

Location 11,986,639 – 11,986,744
Length 105
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 86.02
Mean single sequence MFE -44.55
Consensus MFE -24.69
Energy contribution -26.49
Covariance contribution 1.80
Combinations/Pair 1.06
Mean z-score -2.90
Structure conservation index 0.55
SVM decision value 0.16
SVM RNA-class probability 0.610787
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11986639 105 - 20766785
UCUUCUUUUGGCCAGACAGCCAUGGAUGGAGAUGGGCUGUACGUCUGGUCGGAGGCUGGGAAG--------UGGGGGAUUUGGCACAGCUGUGCCAGCCCAGCACCAACUUCA
((..(((((((((((((((((.............))))....)))))))))))))..))((((--------((((((...((((((....)))))).)))....)).))))). ( -43.72)
>DroSec_CAF1 37863 100 - 1
UCUUCUUUUGGCCAGACAGCCAUGGAUGGUGAUGGGAUGUACGGCUGGUCGGAGGCUGGGAAG--------UGGGGGAUUUGGCACAGCUGUGCCAGCC-----CCAACUUCA
((..((((((((((((((.((((........))))..)))....)))))))))))..))((((--------(.((((...((((((....)))))).))-----)).))))). ( -44.20)
>DroSim_CAF1 41421 100 - 1
UCUUCUUUUGGCCAGACAGCCAUGGAUGGUGAUGGGCUGUACGGCUGGUCGGAGGCUGGGAAG--------AGGGGGAUUUGGCACAGCUGUGCCAGCC-----CCAACUUCA
((..(((((((((((((((((.............))))))....)))))))))))..))((((--------..((((...((((((....)))))).))-----))..)))). ( -46.52)
>DroEre_CAF1 38093 107 - 1
UCUUCUUUUGGCCAGACAGACAUGGAUGGAGAUGGGCUGGAUGGAUAGCCCGAGCAGGGGAAGGAUUUGG-AGGGGGAUUUGGCACAGCUGUGCCAGCU-----CCAACUUCA
((((((((((.(((..((....))..)))...(((((((......)))))))..))))))))))...(((-((..(((.(((((((....))))))).)-----))..))))) ( -48.10)
>DroYak_CAF1 38599 108 - 1
UCUUCUUUUGGCCAGACAGACAUGGCUGGAGAUGGGCUGGAUGGAUGGUCGGAGGAUGGGUAGGAUUUGGGUGGGGGAUUUGGCACAGCUGUGCCAGCU-----CCAACUUCA
((.(((((((((((..((..((.(.((......)).)))..))..))))))))))).))..........((.(..(((.(((((((....))))))).)-----))..).)). ( -40.20)
>consensus
UCUUCUUUUGGCCAGACAGCCAUGGAUGGAGAUGGGCUGUACGGCUGGUCGGAGGCUGGGAAG________UGGGGGAUUUGGCACAGCUGUGCCAGCC_____CCAACUUCA
((..(((((((((((((((((.............))))))....)))))))))))..))((((.........((.....(((((((....))))))))).........)))). (-24.69 = -26.49 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:45 2006