Locus 5235

Sequence ID 2R_DroMel_CAF1
Location 17,044,332 – 17,044,443
Length 111
Max. P 0.857163
window8362

overview

Window 2

Location 17,044,332 – 17,044,443
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.74
Mean single sequence MFE -26.30
Consensus MFE -11.12
Energy contribution -12.64
Covariance contribution 1.52
Combinations/Pair 1.20
Mean z-score -1.99
Structure conservation index 0.42
SVM decision value 0.81
SVM RNA-class probability 0.857163
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17044332 111 + 20766785
GCAAGAGAGACGUCAACAGCAAAAUCCAGUACAUUGCGUAUGAAGCGAGCAGAACAAACUGAUCCAUAUAUAUCAAUGUGUUCUGACUUCAUGGCAGACU---------AAACCUUAUCA
...........(((....((........))....(((.(((((((....(((((((...((((........))))...))))))).))))))))))))).---------........... ( -23.50)
>DroSec_CAF1 137728 111 + 1
AAAAAUGAAACCCCAACAGCAAAAUCCAGUACAUUGCGCAUGAAGCGAGCAGAACAAACUGAACCAUACAUAUCAGUGGGUUCUGACUUCAUGGCAGAGU---------AAAGCUUAUCA
.............................(((.((((.(((((((....((((((..(((((..........)))))..)))))).))))))))))).))---------).......... ( -29.30)
>DroSim_CAF1 146242 111 + 1
GAAAAAGAGACACCAACAGCAAAAUACAGUACAUUGCGCAUGAAGCGAGCAGAACAAACUGAACCAUACAUAUCAGUGGGUUCUGACUUCAUGGCAGAGU---------AAGCCUUAUCA
.............................(((.((((.(((((((....((((((..(((((..........)))))..)))))).))))))))))).))---------).......... ( -29.30)
>DroEre_CAF1 141897 115 + 1
AACAGAGGCACCCCAACAGCAAAAUCCAGCACAUGGCGUACGAAGCGAGCUGAUC-AACUGAAUUA----UGUUAGUGGGCUCUGACUUUAUGCCAGAGAAAACGACUUAUGCCUUAUCA
....((((((........((........))...(((((((..(((((((((.((.-(((.......----.))).)).))))).).))))))))))..............)))))).... ( -30.10)
>DroYak_CAF1 151411 110 + 1
CAAAAAGGCAACCCAGCAGCAAAAUCCAGCACAUUGCGUAUGAAGCGAUCAGAUCGAACUGAAUUC----UG--AACUGAAACUGAA-UUAUGCCAGAGACAACGA---AAGCCUUAUCA
....(((((.........((........))...(((.((((((..((.((((.(((((.....)))----.)--).))))...))..-))))))))).........---..))))).... ( -19.30)
>consensus
AAAAAAGACACCCCAACAGCAAAAUCCAGUACAUUGCGUAUGAAGCGAGCAGAACAAACUGAACCAUA_AUAUCAGUGGGUUCUGACUUCAUGGCAGAGU_________AAGCCUUAUCA
......((..........((((...........))))((((((((....((((((..(((((..........)))))..)))))).))))))).)......................)). (-11.12 = -12.64 +   1.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:48 2006