Locus 1883

Sequence ID 3L_DroMel_CAF1
Location 5,267,965 – 5,268,058
Length 93
Max. P 0.911776
window2936

overview

Window 6

Location 5,267,965 – 5,268,058
Length 93
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 79.79
Mean single sequence MFE -26.50
Consensus MFE -18.06
Energy contribution -18.42
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -2.13
Structure conservation index 0.68
SVM decision value 1.08
SVM RNA-class probability 0.911776
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5267965 93 + 23771897
CAAU--ACUAUGCCCAUUGCCACUCCACC---------ACAUUCGUCUCCGUC--UCAAUUUGCGUGCCAUGGCAUUUGACUUGUGCCGGAAACGGAAGUGUAAUG
....--........((((((.(((.....---------...(((((.((((.(--.(((.(((.((((....)))).))).))).).)))).)))))))))))))) ( -23.30)
>DroPse_CAF1 58418 81 + 1
---U--UCCAUACCCAUUGCCACUC------------------GGUCUCCGUC--UCAAUUUGCGUGCCAUGGCAUUUGACUUGAGCCGGAAACGGAAGUGUAAUG
---.--........((((((.((((------------------.((.((((.(--((((.(((.((((....)))).))).))))).)))).)).).))))))))) ( -28.00)
>DroEre_CAF1 22863 92 + 1
CAU---UCGAUGCCCAAUGCCACACCACC---------ACUUUCGUCUGCGUC--UCAAUUUGCGUGCCAUGGCAUUUGACUUGAGCCGGAAACGGAAGUGUAAUG
...---......................(---------((((((((.(.((.(--((((.(((.((((....)))).))).))))).)).).)))))))))..... ( -26.20)
>DroYak_CAF1 23304 106 + 1
CAAUUCUCUAUGCCCAUUGCCACACCACCACCAACACCACGUUCGUCUCCGUCUCUCAAUUUGCGUGCCCUGGCAUUCGACUUGAGCCGGAAACGGAAGUGUAAUG
.....................................(((.(((((.((((...(((((.(((.((((....)))).))).))))).)))).))))).)))..... ( -26.80)
>DroAna_CAF1 22255 79 + 1
CAAU--------CCCAUU--CAC---------------UCGCUCGUCUCCGUC--UCAAUUUGCGUGCCAUGGCAUUUGACUUGAGCCGGAAACGGAAGUGUAAUG
....--------..((((--(((---------------(...((((.((((.(--((((.(((.((((....)))).))).))))).)))).)))).)))).)))) ( -26.70)
>DroPer_CAF1 61081 81 + 1
---U--UCCAUACCCAUUGCCACUC------------------GGUCUCCGUC--UCAAUUUGCGUGCCAUGGCAUUUGACUUGAGCCGGAAACGGAAGUGUAAUG
---.--........((((((.((((------------------.((.((((.(--((((.(((.((((....)))).))).))))).)))).)).).))))))))) ( -28.00)
>consensus
CAAU__UCCAUGCCCAUUGCCACUC_____________AC_UUCGUCUCCGUC__UCAAUUUGCGUGCCAUGGCAUUUGACUUGAGCCGGAAACGGAAGUGUAAUG
..............(((((.(((................................((((.(((.((((....)))).))).)))).(((....)))..)))))))) (-18.06 = -18.42 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:04 2006