Locus 1422

Sequence ID 2L_DroMel_CAF1
Location 3,806,245 – 3,806,347
Length 102
Max. P 0.515027
window2313

overview

Window 3

Location 3,806,245 – 3,806,347
Length 102
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 80.08
Mean single sequence MFE -21.82
Consensus MFE -7.13
Energy contribution -7.25
Covariance contribution 0.12
Combinations/Pair 1.20
Mean z-score -2.06
Structure conservation index 0.33
SVM decision value -0.04
SVM RNA-class probability 0.515027
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3806245 102 + 22407834
UAUCGGAAUAUUUGGAAAAUAUGCUAUAAAACUCGGAAAACAACUUCUUUAAAACAAGGAAACCGAA------GAG----AGAGGGCAGGAACUCUAACUCUCUCGCCGCUA
...(((....(((((...................(.....)...((((((.....)))))).)))))------(((----((((....((....))..))))))).)))... ( -19.60)
>DroSec_CAF1 15500 101 + 1
CAUCGGAAUAUUUGGAAAAUAUGCUAUAAAACUCGGAAUACAACUUCUUUAAA-CCAGGAAACCGAA------GAG----AGAGAGCAGGAACUCUAACUCUCUCGCCGCUA
..((((..(((((.((................)).)))))....(((((....-..))))).)))).------..(----((((((..((....))..)))))))....... ( -20.69)
>DroSim_CAF1 15534 101 + 1
UAAUAGAAUAUUUGGAAAAUAUGCUAUAAAACUCGAAAUACGACUUCUUUAAA-CCAGGAAACCGAA------GAG----AGAGAGCAGGAACUCUAACUCUCUCGCCGCUA
..((((.(((((.....))))).)))).............((..(((((....-..)))))..))..------..(----((((((..((....))..)))))))....... ( -18.10)
>DroEre_CAF1 16882 91 + 1
UUUCGGAAUAUUUGGAAAACAUGCUAUAAUACUCAGAAAACAACUUCUGAGAA-CCA--AAACCGAA------------GAGAGAGCAGGAAC------UCUCUCGCCGCUA
.(((((....(((((.....((......)).(((((((......)))))))..-)))--)).)))))------------(((((((......)------))))))....... ( -27.10)
>DroYak_CAF1 17271 103 + 1
UAUCGGAAUAUUUGGAAAUCAUGCUGUAAUACUUAAAAAACAGCUUCUCAAAA-CCA--AAACCAAAGCCGAAGAGAGAGAGAGAGCAGGAAC------UCUCUCACCGCUA
..((((....(((((.......(((((............))))).........-)))--)).......)))).......(((((((......)------))))))....... ( -23.59)
>consensus
UAUCGGAAUAUUUGGAAAAUAUGCUAUAAAACUCGGAAAACAACUUCUUUAAA_CCAGGAAACCGAA______GAG____AGAGAGCAGGAACUCUAACUCUCUCGCCGCUA
...(((....(((((...............................................)))))..............(((((.((.........))))))).)))... ( -7.13 =  -7.25 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:11 2006