Locus 4943

Sequence ID 3R_DroMel_CAF1
Location 13,010,182 – 13,010,279
Length 97
Max. P 0.539150
window8089

overview

Window 9

Location 13,010,182 – 13,010,279
Length 97
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 75.90
Mean single sequence MFE -25.99
Consensus MFE -15.98
Energy contribution -16.15
Covariance contribution 0.17
Combinations/Pair 1.12
Mean z-score -1.29
Structure conservation index 0.62
SVM decision value 0.01
SVM RNA-class probability 0.539150
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13010182 97 + 27905053
CUUCCGUAGGGCAUCAUUUGCACAAGAAUUGCAAAAAAUGUUCGCCGUCCGGCCGCCUG--GCAUU----------------UGCAAAACAAAAAGUUAACUGUCAUUUAGACCC
.....((.((((....((((((.......))))))........(((....))).)))).--))...----------------....................(((.....))).. ( -18.80)
>DroVir_CAF1 33424 98 + 1
CUUCCGGUGGGCAUCAUUUGCACAAAAAUUGCAAA-UAUUCCCGCUGGCGAGCCGGACG--ACA------------AAACCAUGC-AGACAAAAAGUUAACUGGCAUUUUAGUU-
...((((((((.((.(((((((.......))))))-))).))))))))...(((((..(--((.------------.........-.........)))..))))).........- ( -27.91)
>DroPse_CAF1 38602 113 + 1
CUUCCGGAGGGCAUCAUUUGCACGAGAAUUGCAAA-AAUGUUCGCCGUCCGGCUGAGAGAGGGACACCGCACAAAAAAUCCAUGC-AAACAAAAAGUUAACUGGCAUUUGGGCCG
.....(((.(((..((((((((.......))))..-))))...))).)))((((.((((.((....)).).........(((.(.-.(((.....)))..))))..))).)))). ( -28.50)
>DroEre_CAF1 30872 95 + 1
CUUCCGGAGGGCAUCAUUUGCACAAGAAUUGCAAA-AAUGUUCGCCGUCCGGCCGCCUG--GCAUU----------------UGCAAAACAAAAAGUUAACUGCCAUUUAGCCC-
.....(((.(((..((((((((.......))))..-))))...))).)))(((....((--(((..----------------.((..........))....)))))....))).- ( -25.80)
>DroYak_CAF1 31461 96 + 1
CUUCCGGAGGGCAUCAUUUGCACAAGAAUUGCAAA-AAUGUUCGCCGUCCGGCCGCCUG--GCAUU----------------UGCAAAACAAAAAGUUAACUGUCAUUUAGCCCC
...(((((.(((..((((((((.......))))..-))))...))).)))))......(--(((..----------------((((.(((.....)))...)).))..).))).. ( -24.10)
>DroAna_CAF1 31417 105 + 1
CUUCCGGAGGGCAUCAUUUGCACAAAAAUUGCAAA-AAUGUUUGCUGUCCGGCCAGGAA--GGACAC------GAAAAGCCAUGC-AAACAAAAAGUUAGUUGCCAUUUUGGGAA
.((((((((((((.(.((((((.......))))))-..((((((((((((.........--))))).------(......)..))-)))))........).)))).)))))))). ( -30.80)
>consensus
CUUCCGGAGGGCAUCAUUUGCACAAGAAUUGCAAA_AAUGUUCGCCGUCCGGCCGCCUG__GCAUU________________UGC_AAACAAAAAGUUAACUGCCAUUUAGGCC_
...(((((.(((..((((((((.......)))))...)))...))).)))))............................................................... (-15.98 = -16.15 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:38 2006