Locus 5212

Sequence ID X_DroMel_CAF1
Location 13,620,325 – 13,620,445
Length 120
Max. P 0.999294
window8453

overview

Window 3

Location 13,620,325 – 13,620,445
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.71
Mean single sequence MFE -21.69
Consensus MFE -20.96
Energy contribution -21.16
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.97
SVM decision value 3.49
SVM RNA-class probability 0.999294
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13620325 120 + 22224390
CCGCACACACACAUUCACACAUUCACAGACUGCUGAUUUUACUGUUUGGUUUGUAAUUUUGCCAAAUUGUAGACACAGCAUAAUAAGCACACAAAAAGAAACGAAACUACAUAUGUACUU
..........((((.......(((......(((((..(((((.(((((((..(....)..))))))).)))))..)))))...........(.....)....))).......)))).... ( -17.84)
>DroSec_CAF1 6216 116 + 1
ACA--CACACACA--CACACAUUCACAGACUGCUGAUUUUACUGUUUGGUUUGUAAUUUUGCCAAAUUGUAGACACAGCAUAAUAAGCACACAAAAAGAAACGAAACUACAUAUGUAGUU
...--........--...............(((((..(((((.(((((((..(....)..))))))).)))))..)))))........................((((((....)))))) ( -22.00)
>DroSim_CAF1 6212 118 + 1
CCACACACACACA--CACACAUUCACAGACUGCUGAUUUUACUGUUUGGUUUGUAAUUUUGCCAAAUUGUAGACACAGCAUAAUAAGCACACAAAAAGAAACGAAACUACAUAUGUAGUU
.............--...............(((((..(((((.(((((((..(....)..))))))).)))))..)))))........................((((((....)))))) ( -22.00)
>DroEre_CAF1 6191 112 + 1
ACACACG--------CACACACUCACAUACUGCUGAUUUUACUGUUUGGUUUGUAAUUUUGCCAAAUUGUAGACACAGCAUAAUAAGCACACAAAACGAAGAGAAACUACAAAUGUAGUU
.......--------......(((......(((((..(((((.(((((((..(....)..))))))).)))))..)))))...........(.....)..))).((((((....)))))) ( -22.90)
>DroYak_CAF1 5796 114 + 1
ACACACACA------CACACACUCUCAUAGUGCUGAUUUUACUGUUUGGUUUGUAAUUUUGCCAAAUUGUAGACACAGCAUAAUAAGCACACACAAAGAAAAGAAACUACAAAUGUAGUU
.........------..............((((((..(((((.(((((((..(....)..))))))).)))))..)))))).......................((((((....)))))) ( -23.70)
>consensus
ACACACACACACA__CACACAUUCACAGACUGCUGAUUUUACUGUUUGGUUUGUAAUUUUGCCAAAUUGUAGACACAGCAUAAUAAGCACACAAAAAGAAACGAAACUACAUAUGUAGUU
..............................(((((..(((((.(((((((..(....)..))))))).)))))..)))))........................((((((....)))))) (-20.96 = -21.16 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:28 2006