Locus 10088

Sequence ID 3R_DroMel_CAF1
Location 27,033,220 – 27,033,310
Length 90
Max. P 0.600488
window16062

overview

Window 2

Location 27,033,220 – 27,033,310
Length 90
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 83.03
Mean single sequence MFE -25.24
Consensus MFE -19.49
Energy contribution -19.60
Covariance contribution 0.11
Combinations/Pair 1.11
Mean z-score -1.56
Structure conservation index 0.77
SVM decision value 0.14
SVM RNA-class probability 0.600488
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27033220 90 + 27905053
AGCUGGCAGGGCACUGCCAGAAUAGCCGUGCGACAUCUUCAGAGAGAUGAGCGAGUGACCAAUCUAAAAAAU----AGAUUUUUU-UAUUAAGUG
..(((((((....)))))))........(((..((((((....)))))).)))(((((..((((((.....)----)))))...)-))))..... ( -24.60)
>DroSec_CAF1 80592 90 + 1
AGCUGGCAGGGCACUGCCAGAGUAGCCGUGCGACAUCUUCAGAGAGAUGAGCGAGUGUCCAAUCUAUAGAAU----AUAAUUUAU-UAUUAAAUG
..(((((((....))))))).((((...((.((((((((((......)))).)).))))))..)))).....----...(((((.-...))))). ( -23.90)
>DroSim_CAF1 83047 90 + 1
AGCUGGCAGGGCACUGCCAGAGUAGCCGUGCGACAUCUUCAGAGAGAUGAGCGAGUGUCCAAUCUAUAGAAU----AAAUUUUAU-UAUUAAAUG
..(((((((....))))))).((((...((.((((((((((......)))).)).))))))..)))).....----.........-......... ( -23.70)
>DroEre_CAF1 86836 94 + 1
AGCUGGCAGGGAACUGCCAGAGUAGCCGUGCGACAUCUUCAGAGAGAUGAGCGAGUGACCAAUCUAUAUAAAAAGGAUAUUGUAU-UAUCUAAUG
..(((((((....))))))).((.(((((....((((((....)))))).))).)).))...............(((((......-))))).... ( -26.90)
>DroYak_CAF1 83640 94 + 1
AGCUGGCAGGGCACUGCCGGAGUAGCCGUGCGACAUCUUCAGCGAGAUGAGCGAGUGACCAAUCUACAGAAAAAGGAUAUUGCAU-GAUCUAAUG
..(((((((....)))))))..(((.(((((((.(((((...(.((((.............))))...)....))))).))))))-)..)))... ( -26.42)
>DroPer_CAF1 86245 89 + 1
AGCGGGCAGGGCACUGCCCGAGUAGCCAUGCGACAUCUUCAGAGAUAUCAGAGAGUGACCAAUCUGUAAGAU----AACC--AAGGAACCAAGUU
..(((((((....))))))).....((.((.(..(((((((((....(((.....)))....)))).)))))----..))--).))......... ( -25.90)
>consensus
AGCUGGCAGGGCACUGCCAGAGUAGCCGUGCGACAUCUUCAGAGAGAUGAGCGAGUGACCAAUCUAUAGAAU____AUAUUUUAU_UAUCAAAUG
..(((((((....)))))))....(((((....((((((....)))))).))).))....................................... (-19.49 = -19.60 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:48:36 2006