Locus 1038

Sequence ID 2R_DroMel_CAF1
Location 4,254,260 – 4,254,374
Length 114
Max. P 0.566693
window1839

overview

Window 9

Location 4,254,260 – 4,254,374
Length 114
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 81.87
Mean single sequence MFE -33.96
Consensus MFE -26.31
Energy contribution -26.42
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -1.30
Structure conservation index 0.77
SVM decision value 0.07
SVM RNA-class probability 0.566693
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4254260 114 + 20766785
UUGGGUA--UUGGGCAUUGGGUAUUGGGUAUUGAGCAUUGGAUAUUGACCAGUCGGCCCGCUGAGGCAGCAGC--GGCAUUCACUCACAGAUGCCUCGGCAUAGAUAUCGAAAUGCAA
.......--....(((((.((((((((((.....(.(((((.......)))))).))))(((((((((((...--.))..((.......)))))))))))...))))))..))))).. ( -37.20)
>DroSec_CAF1 15808 86 + 1
UU------------------------------GGGCAUUGGAUAUUGACCAGUCGGCCCGCUGAGGCAGCAGC--GGCAUUCACUCACAGAUGCCUCGGCAUAGAUAUCGAAAUGCAA
..------------------------------(((((((((.......)))))..))))(((((((((((...--.))..((.......))))))))))).................. ( -28.60)
>DroSim_CAF1 19029 100 + 1
UUGGG----------------UAUUGGGUAUUGGGCAUUGGAUAUUGACCAGUCGGCCCGCUGAGGCAGCAGC--GGCAUUCACUCACAGAUGCCUCGGCAUAGAUAUCGAAAUGCAA
....(----------------((((.(((((((((((((((.......)))))..))))(((((((((((...--.))..((.......)))))))))))...))))))..))))).. ( -36.70)
>DroEre_CAF1 15976 100 + 1
UUGGGCA--UUGGGC--------------AUUGGGUAUUGGAUAUUGACCAGUCGGCCCGCUGAGGCAGCAGC--GGCAUUCACUCACAGAUGCCUCGGCAUAGAUAUCGAAAUGCAA
....(((--((((((--------------(((((..............)))))..))))(((((((((((...--.))..((.......)))))))))))...........))))).. ( -34.04)
>DroYak_CAF1 16166 93 + 1
U---------UGGGC--------------UUUGGGUAUUGGAUAUUGACCAGUCGGCCCGCUGAGGCAGCAGC--GGCAUUCACUCACAGAUGCCUCGGCAUAGAUAUCGAAAUGCAA
.---------.((((--------------(((((..............))))..)))))(((((((((((...--.))..((.......))))))))))).................. ( -29.14)
>DroAna_CAF1 16109 102 + 1
UCGGGCACAUUGGCC------------ACAUUGGGCAUUGG----CGGCCAGUCGGCCCGCUGAGGCAGCAGCGCGGCAUUCACUCACAGAUGCCUGGGCAUAGAUAUCGAAAUGCAA
((((((.((.((.((------------.....)).)).)).----..))).(((.((((((((......))))..((((((........)))))).))))...)))..)))....... ( -38.10)
>consensus
UUGGG_____UGGGC______________AUUGGGCAUUGGAUAUUGACCAGUCGGCCCGCUGAGGCAGCAGC__GGCAUUCACUCACAGAUGCCUCGGCAUAGAUAUCGAAAUGCAA
................................(((((((((.......)))))..))))(((((((((((......))..((.......))))))))))).................. (-26.31 = -26.42 +   0.11) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:52 2006