Locus 7272

Sequence ID 3R_DroMel_CAF1
Location 19,199,620 – 19,199,740
Length 120
Max. P 0.904333
window11768

overview

Window 8

Location 19,199,620 – 19,199,740
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.50
Mean single sequence MFE -35.58
Consensus MFE -18.68
Energy contribution -18.33
Covariance contribution -0.35
Combinations/Pair 1.37
Mean z-score -2.38
Structure conservation index 0.53
SVM decision value 1.04
SVM RNA-class probability 0.904333
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19199620 120 + 27905053
UUAUGUGGGCUUUUUCGAAUAAGGAACAAGAGUGCGUUCCAUUCGUUUUCUCCAAUUGUGGCGGCAAUGAAAAUCGCUUUUAUACCAAGGAAAACUGCGAGAAAGCUUGCGCAACAAUUC
....(..((((((((((.....(((((........)))))....(((((((.....(((((.(((.((....)).))).)))))....)))))))..))))))))))..).......... ( -36.60)
>DroSec_CAF1 11323 120 + 1
UUAUGUGGGCUUUUUCGAUUAAAGAACUAGAGUGCGUUCCAUUCGUUUUCUCCAAUUGUGGCGGCAAUGAAAAUCGCUUCCAUACCAAGGAAAACUGCGAGAAAGCUUGCGCACCAAUUC
....(..((((((((((............(((((.....)))))(((((((.....(((((.(((.((....)).))).)))))....)))))))..))))))))))..).......... ( -38.00)
>DroSim_CAF1 11940 120 + 1
UUAUGUGGGCUUUUUCGAUUAAAGAACUAGAGUGCGUUCCAUUCGUUUUCUCCAAUUGUGGCGGCAAUGAAAAUCGCUUUCAUACGAAGGAAAACUGCGAGAAAGCUUGCGCACCACUUC
....(..((((((((((............(((((.....)))))(((((((.....(((((.(((.((....)).))).)))))....)))))))..))))))))))..).......... ( -35.60)
>DroEre_CAF1 14808 120 + 1
UUAUGUGGGCUUUUUCGAAUAAGCAACAAAUGUGCGUGCCAUUCGCUUUCUCCAAUUGUGGCGGUAAUGAAAAUCGCUUUUUUACCAAGGAAAACUGCGAGAAAGCUUGCGCACCAAUUC
....(..((((((((((.....(((.(....))))..(((((...............)))))(((((.(((......))).)))))...........))))))))))..).......... ( -31.06)
>DroYak_CAF1 15879 120 + 1
UUAUGUAUGCUUUUCCUAAUAGGCAACAAAUGUGCGUUUCAUUCGCUUUCUCCAGUUGUGGCGAUAAUAAAAAUCGCUGCUUUUCCAGGGAAAACUGUGCGAAAGCUUGCGCACAAAUUU
...(((.(((((........))))))))..(((((((.......((((((.(((((((..(((((.......)))))..)..(((....)))))))).).))))))..)))))))..... ( -38.80)
>DroAna_CAF1 17431 115 + 1
AGAUGUGGGGUUUUGCGGUGGAGGAAAAAAAAUGUGUGUCCUUCAUUUACUCAAAUUGUGGCGGCAACGAUAAUCGGUUCUAUAGCGAGAGUGCUUGCAUGGAGACUUGCAAGC-----G
...(((((..(.((((.((((((((.............))))))...(((.......))))).))))((.....)))..)))))((....))(((((((.(....).)))))))-----. ( -33.42)
>consensus
UUAUGUGGGCUUUUUCGAAUAAGGAACAAAAGUGCGUUCCAUUCGUUUUCUCCAAUUGUGGCGGCAAUGAAAAUCGCUUCUAUACCAAGGAAAACUGCGAGAAAGCUUGCGCACCAAUUC
...((((((((((((((................(((.......)))(((((........(((((.........))))).........))))).....))))))))))))))......... (-18.68 = -18.33 +  -0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:49 2006