Locus 2857

Sequence ID 2R_DroMel_CAF1
Location 9,873,303 – 9,873,420
Length 117
Max. P 0.500000
window4725

overview

Window 5

Location 9,873,303 – 9,873,420
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.48
Mean single sequence MFE -41.10
Consensus MFE -29.26
Energy contribution -27.95
Covariance contribution -1.31
Combinations/Pair 1.28
Mean z-score -1.39
Structure conservation index 0.71
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9873303 117 - 20766785
GGCUUCGGCUGCUU-CCGGUUUCCGGUG-UCGCAACCCUUCGCGAUGUCCCCCGUGCGAGUGGAGCUACAGUGGGCGUGAGCCGGGCAAAACCUAAAUUUC-UUCGGAGAUUUAAAAAAC
(((....)))....-..((((((((((.-((((..((.(((((.(((.....)))))))).)).(((......)))))))))))))...))))((((((((-....))))))))...... ( -41.90)
>DroSec_CAF1 5927 117 - 1
GGCUUCGGCUGCUU-CCGGUUUCCGGUG-UCGCAACCCUUCGCGUUGUCCCCCGUGCGAGUGGAGCUACAGUGGGCGUGAACCGGGCAAAACCUAAAUUUC-UUCGGAAAUUUAAAAAAC
(((....)))....-..((((((((((.-((((..((.((((((..(....)..)))))).)).(((......)))))))))))))...))))((((((((-....))))))))...... ( -41.40)
>DroYak_CAF1 5717 116 - 1
GGUUUCGGCUGCUU-CCGGUUUCCGGUG-UCGCAACCCUUCGCGAUGUCCCACGUGCGAGUGGAGCUACAGUGGGCGUGAACCGGGCAAAACCUAAAUUUC-UUCGGAAAUUUAAAAA-C
(((((....(((..-((((((..(((..-((((........))))..)(((((((((.......)).)).)))))))..))))))))))))))((((((((-....))))))))....-. ( -43.30)
>DroAna_CAF1 5515 120 - 1
GGCCUCGGUCUCGAACUGUUUUUGGGUGUUCGGAACCCUUUGAAAUGUCUCUGGUGCGAGUGGAGCUACAGGGGGCGUGAACCGGGCAAAAAUUAAAUUUCCUACGGAAAUUUAAAAAAC
.(((.((((.(((....(((((.((((.......))))...)))))((((((.((((.......)).)).)))))).)))))))))).....((((((((((...))))))))))..... ( -37.80)
>consensus
GGCUUCGGCUGCUU_CCGGUUUCCGGUG_UCGCAACCCUUCGCGAUGUCCCCCGUGCGAGUGGAGCUACAGUGGGCGUGAACCGGGCAAAACCUAAAUUUC_UUCGGAAAUUUAAAAAAC
(((....))).......((((((((((..((((..((.((((((..........)))))).)).(((......))))))))))))...)))))((((((((.....))))))))...... (-29.26 = -27.95 +  -1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:17 2006