Locus 401

Sequence ID X_DroMel_CAF1
Location 1,176,292 – 1,176,409
Length 117
Max. P 0.546647
window612

overview

Window 2

Location 1,176,292 – 1,176,409
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.21
Mean single sequence MFE -35.80
Consensus MFE -22.84
Energy contribution -22.92
Covariance contribution 0.08
Combinations/Pair 1.21
Mean z-score -1.83
Structure conservation index 0.64
SVM decision value 0.03
SVM RNA-class probability 0.546647
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1176292 117 + 22224390
GGCGAUCGAUUUGCUCUGCUGCUCCAAUUGCGAUUCCUCUUCUCUUCACUGACGUUUGGUUCGUACGGAGU---GAGCGCCCAUGUGACAUUCCCCUUUGGGCUCGUCUCAUCAAUUGCU
((((((.(((..((((....(((((...(((((..((.....((......)).....)).))))).)))))---))))(((((...(........)..))))).......))).)))))) ( -32.90)
>DroSec_CAF1 12254 120 + 1
GGCGAUCGAUUUGCUCUGCUGCUCCAAUUGCGAUUCCACUUCUUCUCACUGACGUUUGGUUUGUACGGAGUACGGAGCGCCCAUGUGCCAUCCCCCUUUGGGCACGUCCCAUCAAUUGCU
((((((.(((..((((((.((((((...(((((..(((...(.((.....)).)..))).))))).))))))))))))....(((((((...........)))))))...))).)))))) ( -39.40)
>DroSim_CAF1 27315 120 + 1
GGCGAUCGAUUUGCUCUGCUGCUCCAAUUGCGAUUCCACUUCUCCUCACUGACGUUUGGUUUGUACGGAGUACGGAGCGCCCAUGUGCCAUCCCCCUUUGGGCACGUCCCAUCAAUUGCU
((((((.(((..((((((.((((((...(((((..(((..(.((......)).)..))).))))).))))))))))))....(((((((...........)))))))...))).)))))) ( -38.70)
>DroEre_CAF1 11494 110 + 1
GGCGAUCGAUUUGCUCUGGUGCUCCAAUUCCCAAUCCACUUCUU--UACUGGCGUUU-----GCGCGGAGU---UAGCGCCCAUGUGCCGUACCCCUUUAGGUUCGUCCCAUCAAUUGCC
((((((.(((..((.(.((((((..((((((..........(..--....)(((...-----.))))))))---)))))))...).))((.(((......))).))....))).)))))) ( -30.10)
>DroYak_CAF1 14302 110 + 1
GGCAAUCGAUUUGCUCUGGUGCUCCAAUUCCGAUUCCUCUUCUC--UACGGACAUUU-----GUAGGGAGU---UGGCGCCCAUGUGCCAUCCCCUUUUGGGUUUGUCCCAUCAAUUGCU
((((((.(((..((.((((.((.((((((((((.......)).(--(((((....))-----)))))))))---))).))))).).))((..(((....)))..))....))).)))))) ( -37.90)
>consensus
GGCGAUCGAUUUGCUCUGCUGCUCCAAUUGCGAUUCCACUUCUC_UCACUGACGUUUGGUU_GUACGGAGU___GAGCGCCCAUGUGCCAUCCCCCUUUGGGCUCGUCCCAUCAAUUGCU
((((((.(((..((((....(((((......((.......)).........(((.......)))..)))))...))))(((((...............))))).......))).)))))) (-22.84 = -22.92 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:39 2006