Locus 2891

Sequence ID 3R_DroMel_CAF1
Location 7,755,817 – 7,755,917
Length 100
Max. P 0.619033
window4664

overview

Window 4

Location 7,755,817 – 7,755,917
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.24
Mean single sequence MFE -20.95
Consensus MFE -8.67
Energy contribution -9.45
Covariance contribution 0.78
Combinations/Pair 1.04
Mean z-score -2.21
Structure conservation index 0.41
SVM decision value 0.17
SVM RNA-class probability 0.619033
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7755817 100 + 27905053
AGCGGUAUCCAA----------AAAUAAGG-AAAAGGAUA----GCGGUGAGAGAAAUGUUUCUGCAAAUGCAAUAUUGUUAUGCUGUAAUG-----GUAUAAAAUGUAUGCAUAUGUUU
..((.(((((..----------........-....)))))----.))...(((((....)))))(((.((((((((((.(((((((.....)-----))))))))))).))))).))).. ( -23.34)
>DroSec_CAF1 52963 101 + 1
AGCGGUAUCCAA---------AAAAUAAGA-AAAAGGAUA----GCGGUGAGAAAAAUGUUUCUGCAAAUGCAAUAUUGUUAUGCUGUAAUG-----GUAUAAAAUGUAUGCAUAUGUUU
..((.(((((..---------.........-....)))))----.))...(((((....)))))(((.((((((((((.(((((((.....)-----))))))))))).))))).))).. ( -23.16)
>DroSim_CAF1 56124 101 + 1
AGCGGUAUCCAA---------AAAAUAAGG-AAAAGGAUA----GCGGUGAGAGAAAUGUUUCUGCAAAUGCAAUAUUGUUAUGCUGUAAUG-----GUAUAAAAUGUAUGCAUAUGUUU
..((.(((((..---------.........-....)))))----.))...(((((....)))))(((.((((((((((.(((((((.....)-----))))))))))).))))).))).. ( -23.26)
>DroWil_CAF1 108133 119 + 1
AACAACACACACACAUAAAAAAAAAAAACCAAAAUGAAUAUAAACCCGACAAAAAAAUGUUUCUGCAAAUGCAAUAUUGUAAUGCUGUAAUGUGUGGGGAU-AAAUGUAUGCAUAUCUCU
.........(((((((...............................((((......))))...(((..((((....)))).)))....)))))))(((((-(..((....)))))))). ( -17.50)
>DroYak_CAF1 53590 101 + 1
AGCGGUAUCCAA---------AAAAUAAGG-AAAAGGAUA----GCGGUGAGAGAAAUGUUUCUGCAAAUGCAAUAUUGUUAUGCUGUAAUG-----GUAUAAAAUGUAUGCAUAUGUUU
..((.(((((..---------.........-....)))))----.))...(((((....)))))(((.((((((((((.(((((((.....)-----))))))))))).))))).))).. ( -23.26)
>DroPer_CAF1 110324 85 + 1
--------G--------------AG--UGG-GAGUG---G----GAAGCGAGAGAAAUGUUUCAGCAAAUGCAAUAUUGUAAUGCCGUAAUGCC---GUAUAAAAUGUAUGCAUAUGUUU
--------.--------------..--...-.....---.----((((((.......))))))((((.((((((((((...((((.(.....).---))))..))))).))))).)))). ( -15.20)
>consensus
AGCGGUAUCCAA_________AAAAUAAGG_AAAAGGAUA____GCGGUGAGAGAAAUGUUUCUGCAAAUGCAAUAUUGUUAUGCUGUAAUG_____GUAUAAAAUGUAUGCAUAUGUUU
..................................................(((((....)))))(((.((((((((((.((((((............))))))))))).))))).))).. ( -8.67 =  -9.45 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:11 2006