Locus 700

Sequence ID 2R_DroMel_CAF1
Location 3,434,273 – 3,434,383
Length 110
Max. P 0.910004
window1231

overview

Window 1

Location 3,434,273 – 3,434,383
Length 110
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 77.05
Mean single sequence MFE -27.98
Consensus MFE -18.64
Energy contribution -18.03
Covariance contribution -0.61
Combinations/Pair 1.35
Mean z-score -1.72
Structure conservation index 0.67
SVM decision value 1.07
SVM RNA-class probability 0.910004
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3434273 110 - 20766785
UAUAG--CCUUAAACAUUCGAAACUUUAGAUGUUCGGACACUUUAAGCUCGUCUAUCCGGCUCCUAUAUCGGAGCCCAUACAGUCUAGGGAUUCGAAUGCAUACAUGAUGGA
.....--.......((((((((.((((((((....((((...........))))....((((((......))))))......)))))))).))))))))............. ( -32.00)
>DroSec_CAF1 12993 110 - 1
CAUAG--CCUUAAACAUUCGAAACUAAAGAUGUUCGGACACUUUAAGCUCAUCUAUCCGGCUCCUAUAUCGGAGCCUAUACGGUCUAGGGACUCGAAUGCAUAUAUGUUGGA
..(((--(..((..(((((((..((..((((....(((.................)))((((((......))))))......))))..))..)))))))..))...)))).. ( -26.13)
>DroSim_CAF1 10715 110 - 1
UAUAG--CCUUAAACAUUCGAAACAAAAGAUGUUCGGACACUUUAAGCUCAUCUAUCCGGCUCCUAUAUCGGAGCCUAUACGGUCUAGGGACUCGAAUGCAUAUAUGAUGGA
...((--(.(((((..((((((.((.....))))))))...))))))))..((((((.((((((......))))))....(((((....))).))...........)))))) ( -28.90)
>DroEre_CAF1 13047 110 - 1
CAUAG--CCUUAACCAUUUAAUAUCAUAGAUGUUCCGACACUUUAAGCUUAUCUAUCCGGUUCCUUUAUCGGAGCCUAUGAGAUCUAGGGACUCGAAUGCAUUUCUAAAGGA
.....--((((...((((((......))))))...(((..(((((..(((((...((((((......))))))....)))))...)))))..)))............)))). ( -21.00)
>DroYak_CAF1 8080 110 - 1
UAAAG--CCUCAGACAUUUGAAAUUAUAGAUGUUCGGAAAUUUUAAGCUUAUCUAUCCGGCUCCUCUAUCGGAGCCUAUAAGAUCUAGGGAUUCGAAUGCAUUUCUAAUGGU
....(--((..(((((((((((.(..(((((.((.(((.................)))((((((......))))))...)).)))))..).))))))))....)))...))) ( -27.93)
>DroPer_CAF1 8515 100 - 1
AGAAGCAGCUUAAACGUUUGAAA------AUGUUC------UUCAAACUUGUGUACCCGGCUCCGCUGUCGGAGCCAAUCGGGACGAGGGAUUCUACUGUUUACUUGCUCAA
.((.((((..((((((((((((.------......------))))))).......((((((((((....)))))))..(((...))))))........))))).)))))).. ( -31.90)
>consensus
UAUAG__CCUUAAACAUUCGAAACUAUAGAUGUUCGGACACUUUAAGCUCAUCUAUCCGGCUCCUAUAUCGGAGCCUAUACGGUCUAGGGACUCGAAUGCAUAUAUGAUGGA
..............(((((((......(((((.................))))).(((((((((......))))))..((.....)))))..)))))))............. (-18.64 = -18.03 +  -0.61) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:57 2006