Locus 5977

Sequence ID 2L_DroMel_CAF1
Location 16,846,111 – 16,846,210
Length 99
Max. P 0.583487
window9494

overview

Window 4

Location 16,846,111 – 16,846,210
Length 99
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 66.51
Mean single sequence MFE -32.30
Consensus MFE -12.16
Energy contribution -14.54
Covariance contribution 2.38
Combinations/Pair 1.37
Mean z-score -2.28
Structure conservation index 0.38
SVM decision value 0.10
SVM RNA-class probability 0.583487
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16846111 99 + 22407834
CUUUUCCUCUUUCCGCGAAACGAGCACCAGGUUAAGACCCUGACGAGCCAACUCCCUGGCAUAUUCCUUUCCGAUUCCAUCGGUCGCACCGGUCACCAC---------------------
......(((((((...)))).))).....(((...((((.((.(((((((......))))..........(((((...))))))))))..)))))))..--------------------- ( -22.20)
>DroVir_CAF1 2040 99 + 1
UUUCUCUUUGGUGCGUGAGAUGAGCACCAGAUUGAGACCUUGGCGUGCCAAUUCUCUGGCAUACUCCUUGCCAAUGCCAUCAGUGGCGCCGGUUAUCAC---------------------
..((..((((((((.........))))))))..))((((..(((((((((......)))))).......((((.((....)).))))))))))).....--------------------- ( -35.10)
>DroGri_CAF1 2167 99 + 1
CUUCUCCUUGGUGCGCGAGAUCAGCACCAAAUUGAGACCUUGACGUGCCAAUUCUCUGGCGUAUUCCUUCCCAAUACCAUCAGUUGCGCCAGUUAUCAC---------------------
.......((((..((((((.((((.......))))...)))).))..))))....((((((((.....................)))))))).......--------------------- ( -26.50)
>DroEre_CAF1 6260 120 + 1
UUUCUCCUCGUUUCUGGCGAUCAGGACCACAUUGAUGUUCUGGCGGGCCAGCUCCUUGGCGUAUUCCUUGCCAAUUCCAUCGCUGGCCCCCGUGACAGCGGCCCAAUCUCCGAAACGCUC
........((((((.((.(((..((.((.(.....((((.(((.((((((((...((((((.......)))))).......))))))))))).))))).))))..))).))))))))... ( -45.40)
>consensus
CUUCUCCUCGGUGCGCGAGAUCAGCACCAGAUUGAGACCCUGACGUGCCAACUCCCUGGCAUAUUCCUUGCCAAUUCCAUCAGUGGCGCCGGUUACCAC_____________________
..((((((((((((.........))))))))..))))...((((((((((......(((((.......)))))..........))))))..))))......................... (-12.16 = -14.54 +   2.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:57 2006