Locus 3267

Sequence ID 2R_DroMel_CAF1
Location 11,173,160 – 11,173,274
Length 114
Max. P 0.500000
window5361

overview

Window 1

Location 11,173,160 – 11,173,274
Length 114
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.94
Mean single sequence MFE -40.57
Consensus MFE -24.59
Energy contribution -24.03
Covariance contribution -0.55
Combinations/Pair 1.25
Mean z-score -1.59
Structure conservation index 0.61
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11173160 114 + 20766785
GAGACGGCCGCUUUGGUGGGCGUGAGUAUCAGGCCAGUACUUGUGUUCGGAAUGGACACAUUGGGCGGCGAAAGCGGCGAAGGUGGAAAGAAGUCCAGCGGAUACUACAA---CAUA
...(((.((((....)))).))).((((((..(((.((...(((((((.....)))))))....)).((....)))))...(.((((......)))).).))))))....---.... ( -42.60)
>DroPse_CAF1 88165 110 + 1
GACACGGCGGCCUUGGUUGUCGUAAGUAUCAUGCCGGCGCUGGUAUGCGGAAUGGCCACGCUAGGCGGUGAGAGCGGUGAUGGGGGGAAGAAGUCGAGCGGGUACUGAAA-------
...((((((((....)))))))).((((((.(((((((((......)).......((.(.(((.((.((....)).))..))).))).....)))).)))))))))....------- ( -38.80)
>DroEre_CAF1 90346 114 + 1
GAGACGGCCGCUUUGGUGGGCGUGAGUAUCAGGCCAGUACUUGUGUUCGGAAUGGACACGUUGGGCGGCGAAAGAGGCGAAGGUGGAAAGAAGUCCAGCGGAUACUGCAA---CAUA
...(((.((((....)))).))).((((((............((((((.....))))))(((((((..(....)..((....))........))))))).))))))....---.... ( -38.30)
>DroYak_CAF1 87731 114 + 1
GAGACGGCCGCUUUGGUGGGCGUGAGUAUCAGGCCAGUACUUGUGUUCGGAAUGGACACGUUGGGCGGCGAAAGAGGCGAGGGUGGAAAGAAGUCCAGCGGAUACUGCAA---CAUA
...(((.((((....)))).))).((((((..(((.((...(((((((.....)))))))....))..(....).)))...(.((((......)))).).))))))....---.... ( -37.80)
>DroAna_CAF1 96199 117 + 1
GACACAGCUGCCUUAGUGGGCGUGAGUAUCAGGCCGGUGCUGGUAUGCGGUAUGGCCACACUGGGUGGCGACAGUGGAGAGGGCGGGAAGAAGUCCACCGGGUACUGCAUUAAAACA
......((..(((.((((.((....))....(((((.(((((.....)))))))))).)))))))..))(.(((((....((...(((.....))).))...))))))......... ( -42.20)
>DroPer_CAF1 87809 110 + 1
GACACGGCGGCCUUGGUUGUCGUGAGUAUCAGGCCGGCGCUGGUAUGCGGAAUGGCCACGCUAGGCGGUGAGAGCGGUGAUGGGGGGAAGAAGUCGAGCGGGUACUGAAA-------
..(((((((((....)))))))))((((((.(((((.(((......)))...))))).((((..((.((....)).))(((...........))).))))))))))....------- ( -43.70)
>consensus
GACACGGCCGCCUUGGUGGGCGUGAGUAUCAGGCCAGUACUGGUAUGCGGAAUGGACACGCUGGGCGGCGAAAGCGGCGAAGGUGGAAAGAAGUCCAGCGGAUACUGCAA___CAUA
...(((.((((....)))).))).((((((..((((...((.......))..))).).((((((((..(....................)..))))))))))))))........... (-24.59 = -24.03 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:29 2006