Locus 1556

Sequence ID 3L_DroMel_CAF1
Location 4,543,263 – 4,543,381
Length 118
Max. P 0.565542
window2415

overview

Window 5

Location 4,543,263 – 4,543,381
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.62
Mean single sequence MFE -16.71
Consensus MFE -0.44
Energy contribution -1.84
Covariance contribution 1.40
Combinations/Pair 1.15
Mean z-score -1.29
Structure conservation index 0.03
SVM decision value 0.06
SVM RNA-class probability 0.565542
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4543263 118 - 23771897
AA--UAACAAACAGAAAAGGCACCCCCAGCAAACUUAAUUCCAACUAAAUAAAUAUAAAUUCACAUUUAUCUCAAUAAACUGCAAUCUAUGUUCUUUUUCUGCUGGCUGCUGAUUUCUGC
..--.......((((((.((((...((((((...............(((..((((((.(((((..(((((....))))).)).))).))))))..)))..)))))).))))..)))))). ( -19.63)
>DroSec_CAF1 120492 89 - 1
AA--UAACAAACAGAAAAGGCACCCCCAGCAAA-----------CUAAAUAAAUAUAAAUUCACAUUUAUCUCAAUAAGCUGCAAUCUAUGUUCUUU------------------GCUGU
..--......(((((((..(((....((((...-----------....((((((..........))))))........)))).......)))..)))------------------.)))) (  -9.16)
>DroEre_CAF1 126333 116 - 1
AA--UAACAAACAGAAAAGGCACCCCC-GCAUACUUAAUUCCAACUAAAUAUAUAUAAAUUCACAUUUAUCUCAAUAAACUGCAGUCUAUGUUCUUU-UCAGCUGGCUGUUGAUUUCUGU
..--......(((((((..((......-)).................................................(.((((((..((......-.))...)))))).).))))))) ( -15.30)
>DroYak_CAF1 123945 117 - 1
AA--UAACAAACAGAAAAGGCACCCCCAGCAUACGUGAUUCCAACUAAAUAAAUAUAAUUUCACAUUUAUCUCAAUAAACUGCAAUCUAUGCUCUUU-UCUGCUGGUUGAUGAUGGCUGU
..--((((...(((((((((((......(((...((((......................)))).(((((....))))).)))......))).))))-))))...))))........... ( -19.45)
>DroAna_CAF1 121065 110 - 1
GAGCUAGCAAAGAGCAAA--CAAUGGCAAUGAACUAAAUUCGAGCUAAAUAAAUAUUAAAUUUCAUUUAUCUCAAUAAACUGCAGUCCGUGCUGCUA-UCCCAUGGCU-------UGUGC
......(((..((((...--..((((...............(((.(((((((((.....)))).))))).)))........(((((....)))))..-..)))).)))-------).))) ( -20.00)
>consensus
AA__UAACAAACAGAAAAGGCACCCCCAGCAAACUUAAUUCCAACUAAAUAAAUAUAAAUUCACAUUUAUCUCAAUAAACUGCAAUCUAUGUUCUUU_UCUGCUGGCUG_UGAU_UCUGU
.........................(((((...................................(((((....)))))..(((.....))).........))))).............. ( -0.44 =  -1.84 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:32 2006