Locus 2007

Sequence ID X_DroMel_CAF1
Location 5,511,013 – 5,511,120
Length 107
Max. P 0.761255
window3264

overview

Window 4

Location 5,511,013 – 5,511,120
Length 107
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 77.03
Mean single sequence MFE -34.15
Consensus MFE -19.05
Energy contribution -20.30
Covariance contribution 1.25
Combinations/Pair 1.30
Mean z-score -1.80
Structure conservation index 0.56
SVM decision value 0.50
SVM RNA-class probability 0.761255
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5511013 107 - 22224390
AUAC------AUAACAAAACAAUGCGUGUGGGCCAGCUGCUCCGCUUCCGGAGCACCAGCUUGCGCAGCUCCACCGCCAGGCAGGAGUACGUGCCGCAUCACAAGCCCGUCGU
....------.............(((...((((..(.(((((((....))))))).).((..((((.(((((.((....))..)))))..)))).)).......))))..))) ( -36.50)
>DroPse_CAF1 15398 113 - 1
AUAUAUAAACAAAACAAAACAAUGCGAGUAAGUAACUUACUUAGAUUUCGCAGCACUUCUCUGCAGAGGUGCAGCAUCAAGCAGCAAUAUGUGCCACAGCACAAGCCGGCGCU
......................((((((((((...))))))).......((.((((((((....)))))))).)).....))).......(((((...((....)).))))). ( -30.20)
>DroSim_CAF1 1049 107 - 1
AUAC------AUAACAAAACAAUGCGUGUGGGCCAGCUGCUUCGCUUCCGGAGCACCAGCCUGUGCAGCUCCACCGCCAGGCAGGAGUAUGUGCCGCUUCACAAGCCCGUCGU
....------.............(((...((((..(.(((((((....))))))).)(((..(..(((((((.((....))..))))).))..).)))......))))..))) ( -33.20)
>DroEre_CAF1 1080 107 - 1
AUAC------AUAACAAAACAAUGCGUGUGGGCCAGUUGCUCCGCUUCCGGAGCACCACCUUGCGUAGCUCCACCGCCAGGCAGGAGUAUGUGCCGCAUCACAAGCCCGCCGU
....------.............(((.((((((..(.(((((((....))))))).)....(((((((((((.((....))..)))))...)).))))......))))))))) ( -37.80)
>DroYak_CAF1 1047 107 - 1
AUAC------AUAACAAAACAAUGCGUGUGGGCCAGUUGCUCCGCUUCCGGAGCACCACCUUGCGCAGCUCCACCGCCAAGCAGGAGUACGUGCCGCAUCACAAGCCCGCCGU
....------.............(((.((((((..(.(((((((....))))))).)....(((((((((((...((...)).)))))...)).))))......))))))))) ( -37.00)
>DroPer_CAF1 17916 108 - 1
AUAUAUAAACA-----AAACAAUGCGAGUAAGUAACUUACUUAGAUUUCGCAGCACUUCUCUGCAGAGGUGCAGCAUCAAGCAGCAAUAUGUGCCACAGCACAAGCCGGCGCU
...........-----......((((((((((...))))))).......((.((((((((....)))))))).)).....))).......(((((...((....)).))))). ( -30.20)
>consensus
AUAC______AUAACAAAACAAUGCGUGUGGGCCAGUUGCUCCGCUUCCGGAGCACCACCCUGCGCAGCUCCACCGCCAAGCAGGAGUAUGUGCCGCAUCACAAGCCCGCCGU
...........................((((((....(((((((....))))))).......((((((((((...........))))).)))))..........))))))... (-19.05 = -20.30 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:59 2006