Locus 1809

Sequence ID 3R_DroMel_CAF1
Location 5,166,295 – 5,166,391
Length 96
Max. P 0.500000
window2980

overview

Window 0

Location 5,166,295 – 5,166,391
Length 96
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 68.18
Mean single sequence MFE -21.49
Consensus MFE -10.91
Energy contribution -11.58
Covariance contribution 0.67
Combinations/Pair 1.33
Mean z-score -1.37
Structure conservation index 0.51
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5166295 96 - 27905053
AAUGAAGCAC-----------------AAAAGCUUAGUGUUGAUUAGCUCUGAAAUGCAGUGCUAAUAAAAAUUAUACAGCACUGAAA-AUAUGAUUGCCCAGUUU--UUGCUCAU
.((((.(((.-----------------.((((((((((((((((((((.(((.....))).))))))..........)))))))))..-...((......))))))--)))))))) ( -23.80)
>DroPse_CAF1 4573 78 - 1
--------------------------------AUAAGGGUA---UACACCUGAUUGUUAGGUAGAAUUUAAAUUGUAUAUUUCUGAAA-AU-UUAUU-CCAAGUAUUCCAUUUGAU
--------------------------------....(((.(---(((((((((...)))))).(((..((((((.............)-))-)))))-)...)))))))....... ( -10.52)
>DroSec_CAF1 4882 113 - 1
AAUCAAGCACAGGGAAUGUCACAUUGCAAAUGCUUAGUGUUGAUUAGCUCUGAAAUGCAGUGCUAAUAAAAAUUUUACAGCACUGAAA-AUAUUAUUGCCCAGUUG--CUGCUCAU
.....(((((.(((((((.......((....))(((((((((((((((.(((.....))).))))))..........)))))))))..-....)))).))).).))--))...... ( -28.00)
>DroSim_CAF1 4820 113 - 1
AAUCAAGCACAGAGAAUGUCACAUUGCAAAUGCUUAGUGUUGAUUAGCUCUGAAAUGCAGUGCUAAUAAAAAUUGUACAGCACUGAAA-AUAUUAUUGCCAAGUUU--CUGCUCAU
.....(((((((((...((((((((((....))..)))).))))...))))).....(((((((..............)))))))...-.................--.))))... ( -25.84)
>DroEre_CAF1 4520 114 - 1
AAUCCUGCACACGGAAUGUAAAUUUGCAAGUGCUAAGUGUUGAUUAGUUCUGAAAGGUAGUGCUAAUAAAAAAUGUACAGCACUGAAAAAUAUUAUUGUCCAAUUU--CCGCUCAU
............(((..((((((((...((((((..(..((.((((((.(((.....))).))))))....))..)..))))))...)))).))))..))).....--........ ( -21.80)
>DroYak_CAF1 4902 114 - 1
AAUCAAGCACACGUAAUGUCACCUUGCAAAUGUUUAGUGUUGAUUAGUUUUGAAAGAAAGUGCUAAAAAAAAUUGUACAGCACUGAAAUAUAUUUUUGUCCAAUUC--CAGCUUAU
....((((....((((.......)))).....((((((((((..(((((((...((......))....)))))))..))))))))))...................--..)))).. ( -19.00)
>consensus
AAUCAAGCACA_GGAAUGUCAC_UUGCAAAUGCUUAGUGUUGAUUAGCUCUGAAAGGCAGUGCUAAUAAAAAUUGUACAGCACUGAAA_AUAUUAUUGCCCAGUUU__CUGCUCAU
.................................(((((((((((((((.(((.....))).))))))..........))))))))).............................. (-10.91 = -11.58 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:04 2006