Locus 2847

Sequence ID 2R_DroMel_CAF1
Location 9,838,409 – 9,838,519
Length 110
Max. P 0.512942
window4703

overview

Window 3

Location 9,838,409 – 9,838,519
Length 110
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 82.89
Mean single sequence MFE -37.12
Consensus MFE -20.26
Energy contribution -21.28
Covariance contribution 1.02
Combinations/Pair 1.18
Mean z-score -2.05
Structure conservation index 0.55
SVM decision value -0.04
SVM RNA-class probability 0.512942
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9838409 110 + 20766785
CACUCCAGCGGAUGGAUCCAGCGUAUCCAACGGAUCCAGCUGUGACCCACUGCACCAGUUUUGGUCUUUGGAUCUGCGGAUCCCGCUUGGGCCUGGG------CUUCAUCUCCAUC--
.......(.((((((((((((.((..(((((((((((.((...((.(((..(.(((......))))..))).)).)))))).))).)))))))))))------.))))))).)...-- ( -39.40)
>DroSec_CAF1 77506 112 + 1
CACUCCAGCGGAUGGAUGCAGUGUAUCCAACGGAUCCAGCUGUGACCCACUGCACUAGUUUUGGUCUUUCGAUCUGCUGUUCCCGCUUGUGCCUGGG------CUUCAUCGCCAUCUU
(((...(((((.....(((((((..((..((((......))))))..))))))).((((...((((....)))).))))...))))).)))....((------(......)))..... ( -33.70)
>DroSim_CAF1 78805 112 + 1
CACUCCAGCGGAUGGAUCCAGCGUAUCCAACGGAUCCAGCUGUGACCCACUGCACCAGUUUUGGUCUUUCGAUCUGCGGUUCCCGCUUGGGCCUGGG------CUUCAUCGCCAUCUU
..(((.(((((..((.((((((..((((...))))...)))).)).))((((((........((((....))))))))))..))))).)))....((------(......)))..... ( -35.40)
>DroEre_CAF1 80599 105 + 1
CACUCCAGCGGA----UCC---------AACGGGUCCAGCUGUGACCCACUGCACCAGUUUUGCUCUUUGGAUCCGCGGAUCCCGCUUGGGCCUGGGCCUGGGCUUCAUCUCCAUCUC
...(((.(((((----(((---------((.((((..(((((((........)).)))))..)))).)))))))))))))....(((..(((....)))..))).............. ( -46.30)
>DroYak_CAF1 78275 102 + 1
CACUCCAACAGA----UCCAACAUAUCCAACAGAUCCAGCUGUGACCCACUGCACCAGUUUUGGUCUUUGGAUCCGCGGAUCCCACUUGGGUCUGGG------CUUC------AUCUC
........((((----(((((...((((..(.(((((((....((((.((((...))))...)))).))))))).).)))).....)))))))))..------....------..... ( -30.80)
>consensus
CACUCCAGCGGAUGGAUCCAGCGUAUCCAACGGAUCCAGCUGUGACCCACUGCACCAGUUUUGGUCUUUGGAUCUGCGGAUCCCGCUUGGGCCUGGG______CUUCAUCGCCAUCUC
.........((((((...............(((((((((....((((.((((...))))...)))).))))))))).....(((((....))..)))..............)))))). (-20.26 = -21.28 +   1.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:56 2006