Locus 6667

Sequence ID 3L_DroMel_CAF1
Location 17,740,016 – 17,740,176
Length 160
Max. P 0.662266
window10852 window10853

overview

Window 2

Location 17,740,016 – 17,740,136
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.93
Mean single sequence MFE -31.23
Consensus MFE -21.86
Energy contribution -22.80
Covariance contribution 0.94
Combinations/Pair 1.09
Mean z-score -2.44
Structure conservation index 0.70
SVM decision value 0.26
SVM RNA-class probability 0.658774
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17740016 120 + 23771897
AAUAACAGUUAAAAAUGCCAUGAGAAUUCGAAUUAUUUCCAAAUGCAAUUACAGUGUUCAGUGGCGACUGUCCAUAAGUCAAGGUUCCCAAAUUGAACCCACUUUGGACAGGUGGUCUUA
...............((((((..((((.((((....)))....((......))).)))).)))))).(((((((.((((...(((((.......))))).)))))))))))......... ( -28.20)
>DroSec_CAF1 21227 119 + 1
AAUAGCAGUUAAAAAUGCCAUGAGAAUUCGAAUUAUUUCGAAAUGCAAUUACAGUGUUCAAUGGCCACUGUCCAUA-GUCAAGGUUCCUAAUUUGAACCUACUUUGGACAGCUGGUCUUA
....(((........)))..((((..((((((....))))))..((.......)).))))..((((((((((((.(-((..((((((.......))))))))).))))))).)))))... ( -35.20)
>DroSim_CAF1 24480 119 + 1
AAUAGCAGUUAAAAAUGCCAUGAGAAUUCGAAUUAUUUCGAAAUGCAAUUACAGUGUUCAGUGGCCACUGUCCAUA-GUCAAGGUUCCUAAAUUGAACCCACUUUGGACAGCUGGUCUUA
....(((........)))..((((..((((((....))))))..((.......)).))))..((((((((((((.(-((...(((((.......))))).))).))))))).)))))... ( -33.50)
>DroEre_CAF1 35986 117 + 1
AAUAGCAGUUAAAAAUGUCAUGAGAAUACGAAUGAUACCGAAAUGCAAUUAGUGCGUUC-UUGGCCACUGUCUAUA-GUCAAGGUUCCUAAAUUGAACCCACUUUGG-CAGCUGGUCUAA
...............((((((..(....)..))))))..(((.((((.....)))))))-..((((((((((...(-((...(((((.......))))).)))..))-))).)))))... ( -28.00)
>consensus
AAUAGCAGUUAAAAAUGCCAUGAGAAUUCGAAUUAUUUCGAAAUGCAAUUACAGUGUUCAGUGGCCACUGUCCAUA_GUCAAGGUUCCUAAAUUGAACCCACUUUGGACAGCUGGUCUUA
.............(((((..(((...((((((....))))))......)))..)))))....((((((((((((...((...(((((.......))))).))..))))))).)))))... (-21.86 = -22.80 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 17,740,056 – 17,740,176
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.05
Mean single sequence MFE -30.28
Consensus MFE -22.81
Energy contribution -23.37
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -2.02
Structure conservation index 0.75
SVM decision value 0.27
SVM RNA-class probability 0.662266
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17740056 120 + 23771897
AAAUGCAAUUACAGUGUUCAGUGGCGACUGUCCAUAAGUCAAGGUUCCCAAAUUGAACCCACUUUGGACAGGUGGUCUUACAAAUUAUUCACGGCAUAAUUACACACCAAGGCUUCAGGG
....((.......((((...(((.(..(((((((.((((...(((((.......))))).)))))))))))((((.............))))).)))....))))......))....... ( -28.94)
>DroSec_CAF1 21267 119 + 1
AAAUGCAAUUACAGUGUUCAAUGGCCACUGUCCAUA-GUCAAGGUUCCUAAUUUGAACCUACUUUGGACAGCUGGUCUUACAAAUUAUUCACGGCAUAAUUACACACCAAGGCUUCUGGG
..((((........(((.....((((((((((((.(-((..((((((.......))))))))).))))))).)))))..)))...........)))).........(((.......))). ( -33.81)
>DroSim_CAF1 24520 119 + 1
AAAUGCAAUUACAGUGUUCAGUGGCCACUGUCCAUA-GUCAAGGUUCCUAAAUUGAACCCACUUUGGACAGCUGGUCUUACAAAUUAUUCACUGCAUAAUUACACACCAAGGCUUCUGGA
...((.((((((((((......((((((((((((.(-((...(((((.......))))).))).))))))).)))))............)))))..))))).))..(((.......))). ( -32.67)
>DroEre_CAF1 36026 117 + 1
AAAUGCAAUUAGUGCGUUC-UUGGCCACUGUCUAUA-GUCAAGGUUCCUAAAUUGAACCCACUUUGG-CAGCUGGUCUAACAAAUUAUUCACGGCAUAAUUACACACCAAGGCUUCUCGA
..((((...((((..(((.-..((((((((((...(-((...(((((.......))))).)))..))-))).))))).)))..))))......))))....................... ( -25.70)
>consensus
AAAUGCAAUUACAGUGUUCAGUGGCCACUGUCCAUA_GUCAAGGUUCCUAAAUUGAACCCACUUUGGACAGCUGGUCUUACAAAUUAUUCACGGCAUAAUUACACACCAAGGCUUCUGGA
....((.......((((.....((((((((((((...((...(((((.......))))).))..))))))).))))).....((((((.......))))))))))......))....... (-22.81 = -23.37 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:07 2006