Locus 3498

Sequence ID 3R_DroMel_CAF1
Location 9,448,670 – 9,448,767
Length 97
Max. P 0.831673
window5621

overview

Window 1

Location 9,448,670 – 9,448,767
Length 97
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 77.49
Mean single sequence MFE -25.73
Consensus MFE -15.16
Energy contribution -15.38
Covariance contribution 0.22
Combinations/Pair 1.14
Mean z-score -1.83
Structure conservation index 0.59
SVM decision value 0.72
SVM RNA-class probability 0.831673
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9448670 97 - 27905053
GGACGAGUGACAG---CUUAUGCACUCG-------AAAUACGCAUUUCAAUGCGGUUUU-UGGCAUUUUGUCUAACGCAAAAUAUAAAUGCAUUUUGUCACUGAAUGA
.....((((((((---...(((((.(((-------(((..(((((....)))))..)))-))).((((((.(....))))))).....))))).))))))))...... ( -28.10)
>DroPse_CAF1 79039 97 - 1
GGCAGAGAGGCAGUGGGGCAUGCAUUC--------ACAUACGCAUAUCAAUGCGGUUUU---GAAUUUUGUCUAACGCAAAAUAUAACUGCAUUUUGUCACUGACUGG
(((((((..(((((.(((((...((((--------(....(((((....)))))....)---))))..))))).............))))).)))))))......... ( -26.34)
>DroWil_CAF1 84950 85 - 1
-----------GGUUGGGGAUGC------------AUAUACGCAUAUCAAUGCGGUUGUGUGGCAUUUUGUCUAAAGCAAAAUGUAAAUGCAUUUUGUCACUGACAGC
-----------.((..(.(((((------------(((..(((((....)))))..))))).(((((((((.....)))))))))...........))).)..))... ( -25.30)
>DroYak_CAF1 80722 97 - 1
CGAUGACUGACAG---CUUAUGCACUCG-------AAAUACGCAUUUCAAUGCGGUUUU-UGGCAUUUUGUCUAACGCAAAAUAUAAAUGCAUUUUGUCACUGAAUGA
.......((((((---...(((((.(((-------(((..(((((....)))))..)))-))).((((((.(....))))))).....))))).))))))........ ( -23.30)
>DroAna_CAF1 74149 102 - 1
UG--GAGAGGCAG---CUUAUGCACUCGCAAACUCAAAUACGCAUUUCUGUGCGGUUUU-UGGCAUUUUGUCUAACGCAAAAUAUAAAUGCAUUUUGUCACCGAAUUG
.(--(.((((((.---....))).)))(((...(((((..(((((....)))))...))-))).((((((.(....))))))).....))).........))...... ( -25.00)
>DroPer_CAF1 80612 97 - 1
GGCAGAGAGGCAGUGGGGCAUGCAUUC--------ACAUACGCAUAUCAAUGCGGUUUU---GAAUUUUGUCUAACGCAAAAUAUAACUGCAUUUUGUCACUGACUGG
(((((((..(((((.(((((...((((--------(....(((((....)))))....)---))))..))))).............))))).)))))))......... ( -26.34)
>consensus
GG__GAGAGGCAG___CGUAUGCACUC________AAAUACGCAUAUCAAUGCGGUUUU_UGGCAUUUUGUCUAACGCAAAAUAUAAAUGCAUUUUGUCACUGAAUGG
........(((((......(((((................(((((....)))))..........((((((.(....))))))).....))))).)))))......... (-15.16 = -15.38 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:37 2006