Locus 2218

Sequence ID 3R_DroMel_CAF1
Location 6,328,821 – 6,328,933
Length 112
Max. P 0.644394
window3602

overview

Window 2

Location 6,328,821 – 6,328,933
Length 112
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 73.30
Mean single sequence MFE -18.56
Consensus MFE -0.95
Energy contribution -1.31
Covariance contribution 0.36
Combinations/Pair 1.17
Mean z-score -1.44
Structure conservation index 0.05
SVM decision value 0.23
SVM RNA-class probability 0.644394
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6328821 112 + 27905053
AUACUUCAACGAAAGUUAUG--AUUGUAUAAAAGUGCAAUAAUUAUUUGAAAAAUUUGCUUACUAGUGAAUCAAUCACCAACGAACUUUCCUCUCUGCACUUUCAUUCAAAUGU
((((.(((((....))..))--)..)))).((((((((.........(((...(((..((....))..)))...))).....((.......))..))))))))........... ( -17.70)
>DroSec_CAF1 93650 112 + 1
AUACUUCUGCGAAAGAUAUG--CUUGGAUAAAAGUCCAAUAAUUAUUCGAAAAAUAUGUCUAGUAGAGAAUCAAUCACCACCAAACUUUCCUCUCUGCACUUUCAUUCAAAUAU
..........(((((.....--.((((((....)))))).......................(((((((......................))))))).))))).......... ( -18.05)
>DroSim_CAF1 107202 110 + 1
AUACUUUUGCGAAGGAUAUG--AUUGUAUA--AUUACAAUAAUUAUUUCAAAAAUAUGCUUACUAGAGAAUCAAUCAUCACCAAACUUUCCUCUCUGCACUUUCAUUCAAAUAU
.......(((.(((.((((.--.(((.(((--((((...)))))))..)))..)))).)))...(((((......................))))))))............... ( -13.15)
>DroEre_CAF1 104719 111 + 1
AUACUUCUGCUGCAGGUGUGGGAAUG---AAAUGUACCCUGAUGAGUCGAAAAGUAAAAUUCCCCGAGAAUCAAUCAGCAACUAACUUUGCUCUCUGCAUCUGCAUUCAAAUAC
..........(((((((((((((((.---.....(((..(((....)))....)))..)))))).((((........((((......)))))))).)))))))))......... ( -24.50)
>DroYak_CAF1 93958 100 + 1
AUACUUCUGCUGGAGAAAUGUGAUUG---AAUU-----------AUUCGAAAAGUAAAAUUCCCAGCGAAUCAAUCACCAGGAAACUUUCCUCUCUGCAUUUCCAUUCAAAUAU
.......(((.(((((...(((((((---(...-----------.((((....(.......)....)))))))))))).((....))....))))))))............... ( -19.40)
>consensus
AUACUUCUGCGAAAGAUAUG__AUUG_AUAAAAGUACAAUAAUUAUUCGAAAAAUAUGAUUACUAGAGAAUCAAUCACCAACAAACUUUCCUCUCUGCACUUUCAUUCAAAUAU
...............................................................((((((......................))))))................. ( -0.95 =  -1.31 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:07 2006