Locus 2697

Sequence ID 3R_DroMel_CAF1
Location 7,262,859 – 7,262,959
Length 100
Max. P 0.604775
window4382

overview

Window 2

Location 7,262,859 – 7,262,959
Length 100
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 75.80
Mean single sequence MFE -42.42
Consensus MFE -21.36
Energy contribution -22.00
Covariance contribution 0.64
Combinations/Pair 1.30
Mean z-score -1.77
Structure conservation index 0.50
SVM decision value 0.14
SVM RNA-class probability 0.604775
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7262859 100 + 27905053
UUCUGACGGCCCUGAAGAAAUGGGCAGGCACCCUGCCACGCGAGUCGUCGCUGCGGAAGCGAUUCAGGCUCAUCCUGCUGGAAUAG-----------UGUGGUUCCAGAGC
(((((...((((.........)))).........((((((((((((((((((.....))))))...))))).(((....)))...)-----------))))))..))))). ( -39.40)
>DroPse_CAF1 5710 110 + 1
UCCUCACAGCGCUGAAGAAGUGGGCCAUGACACUGCCGCGGGAGUCGUCGCUGCGCAAGCGGCUGCGACUCAUCCUACUGGAAUAGACGGAAGGUGGUGUCGCUC-AGAGG
.((((..((((((.(.....).)))...(((((..((.((.(((((((.(((((....))))).))))))).(((....))).....))...))..)))))))).-.)))) ( -53.40)
>DroSec_CAF1 5416 100 + 1
UUCUGACGGCGCUGAAGAAAUGGGCAGGCACCCUGCCACGCGAGUCGUCGCUGCGGAAGCGAUUCAGGCUCAUCCUGCUGGAAUAG-----------UGUGGUUCCAGAGC
(((((((.((((((........((((((...))))))....(((((((((((.....))))))...))))).(((....))).)))-----------))).))..))))). ( -39.40)
>DroSim_CAF1 5205 100 + 1
UUCUGACGGCCCUGAAGAAAUGGGCAGGCACCCUGCCACGCGAGUCGUCGCUGCGGAAGCGAUUCAGGCUCAUCCUGCUGGAAUAG-----------UGUGGUUCCAGAGC
(((((...((((.........)))).........((((((((((((((((((.....))))))...))))).(((....)))...)-----------))))))..))))). ( -39.40)
>DroMoj_CAF1 5691 103 + 1
UUUUGACGGCCAUGAAGAAAUGGGCGAUGACCUUGCCACGAGAGUCGUCUCUGCGUAAGCGCUUGCGUCUCAUACUGAUGGAGUAGACCAAAAU-AG-----UUGC--UGU
.....(((((.((((.((..(((((((((((((((...)))).))))))...((....)))))))..))))))((((.(((......)))...)-))-----).))--))) ( -29.50)
>DroPer_CAF1 5429 110 + 1
UCCUCACAGCGCUGAAGAAGUGGGCCAUGACACUGCCGCGGGAGUCGUCGCUGCGCAAGCGGCUGCGACUCAUCCUACUGGAAUAGACGGAAGGUGGUGUCGCUC-AGAGG
.((((..((((((.(.....).)))...(((((..((.((.(((((((.(((((....))))).))))))).(((....))).....))...))..)))))))).-.)))) ( -53.40)
>consensus
UUCUGACGGCCCUGAAGAAAUGGGCAAGCACCCUGCCACGCGAGUCGUCGCUGCGGAAGCGAUUCAGGCUCAUCCUGCUGGAAUAG___________UGUGGUUCCAGAGC
......((((............(((((.....)))))....(((((((((((.....))))))...))))).....))))............................... (-21.36 = -22.00 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:34 2006