Locus 6408

Sequence ID 3L_DroMel_CAF1
Location 17,170,327 – 17,170,443
Length 116
Max. P 0.545525
window10265

overview

Window 5

Location 17,170,327 – 17,170,443
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.20
Mean single sequence MFE -28.80
Consensus MFE -19.69
Energy contribution -19.30
Covariance contribution -0.39
Combinations/Pair 1.09
Mean z-score -1.16
Structure conservation index 0.68
SVM decision value 0.02
SVM RNA-class probability 0.545525
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17170327 116 + 23771897
GAUUGUGCAUAUGUAUGUGUUUACAGUUAGC--GGGCGCCAAACCAAGGUGUCGCCGUGCACCCAA-AAUCGUUUCAGCGUGAAUACAUUUGCACCGU-CUCCAUGUGUCAACCCCGUGC
(((.(((((.....((((((((((.((((((--(((((((.......))))))((...))......-...))))..))))))))))))).))))).))-)..((((.(......))))). ( -32.00)
>DroVir_CAF1 65555 102 + 1
AUACAUACAUAUGUAUGUGUUUACAGUUAGC--GGGCGCCAAACCAAGGUGUCGCCGUGCACCCGA-AAUCGUUUCAACGUGAAUACAUUUACGCCGG-CGUCU---GC-----------
((((((((....)))))))).........((--(((((((.......(((((......)))))...-...........((((((....))))))..))-)))))---))----------- ( -33.80)
>DroPse_CAF1 54217 102 + 1
----AUACAUAUGUAUGUGUUUACAGUUAGC--GGGCGCCAAACCAAGGUGUCGCCGUGCACCCAA-AAUCGUUUCGGCGUGAAUACAUUUGCCCAGC-CCCCCUCCC----------UC
----..........((((((((((.......--.((((((.......))))))((((.((......-....))..)))))))))))))).........-.........----------.. ( -25.50)
>DroGri_CAF1 39605 117 + 1
AUAAAUACAUAUGUAUGUGUUUACAGUUAGCGCGGGCGCCAAACCAAGGUGUCGCCGUGCACCCAA-AAUCGUUUCAGCGUGAAUACAUUUACGCCACACACCU--CGCCACUCCCCAGC
.(((((((((....)))))))))......(((((((((((.......)))))..))))))......-..........(((((((....))))))).........--.............. ( -29.90)
>DroWil_CAF1 67744 116 + 1
AUACAUACAUAUGUAUGUGUUUACAGUUAGC--GGGCGCCAAACCAAGGUGUCGCCAUGCACCCAAAAAUCGUUUCAGCGUGAAUACAUUUGCCCCGU-CACCAUGCUUUCAUCCUAUC-
((((((((....)))))))).....(..(((--((........))..((((.((....(((.........(((....)))..........)))..)).-))))..)))..)........- ( -24.71)
>DroMoj_CAF1 69921 93 + 1
ACACAUACAUAUGUAUGUGUUUACAGUUAGC--GGGCGCCAAACCAAGGUGUCGCCGUGCACCCAA-AAUCGUUUCAGCGUGAAUACAUUUACGCC------------------------
((((((((....)))))))).........((--(((((....((....))..)))).)))......-..........(((((((....))))))).------------------------ ( -26.90)
>consensus
AUACAUACAUAUGUAUGUGUUUACAGUUAGC__GGGCGCCAAACCAAGGUGUCGCCGUGCACCCAA_AAUCGUUUCAGCGUGAAUACAUUUACGCCGC_CACCA__CG____________
............((((((((((((.....((..(((((((.......)))))).)...))...........((....)))))))))))..)))........................... (-19.69 = -19.30 +  -0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:43 2006