Locus 1423

Sequence ID 2L_DroMel_CAF1
Location 3,807,009 – 3,807,108
Length 99
Max. P 0.913363
window2314

overview

Window 4

Location 3,807,009 – 3,807,108
Length 99
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 79.55
Mean single sequence MFE -24.96
Consensus MFE -16.73
Energy contribution -16.48
Covariance contribution -0.25
Combinations/Pair 1.07
Mean z-score -2.07
Structure conservation index 0.67
SVM decision value 1.09
SVM RNA-class probability 0.913363
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3807009 99 + 22407834
CCUCGAUGUGGAAAACCAACGUCACUUAGACGUGGAUAUGGAAACUAGUAAGUGAUC--------------------AAGAUACUUUUAAAAACUACAUAC-UACAUCGGAUAUCCUAAC
..(((((((((....(((.((((.....))))))).((((.........(((((...--------------------....)))))..........)))))-)))))))).......... ( -22.81)
>DroSec_CAF1 16298 118 + 1
CCUCGAUGUGGAAAACCAACGUCACUUAGACGUGGAUAUGGAAACUAGUAAGUGAUUA-ACAGCACAUCCAGAUCUUAAGAUACUUUUAAAGUCUACAUAC-UAUAUCGGAUAUCCUAAC
..(((((((((.......(((((.....)))))((((..(....)......(((....-....)))))))(((..((((((...))))))..))).....)-)))))))).......... ( -26.40)
>DroSim_CAF1 16288 119 + 1
CCUCGAUGUGGAAAACCAACGUCACUUAGACGUGGAUAUGGAAACUAGUAAGAUAUCAAACAGCACAUACAGAUCUUAAGAUACUUUGAAAUAUUACACAC-UAUAUCGGAUAUCCUAAC
..(((((((((....(((.((((.....)))))))....(....)..((((.((.(((((............(((....)))..))))).)).))))...)-)))))))).......... ( -22.94)
>DroEre_CAF1 17705 119 + 1
CCUCGAUGUGGAAAACCAACGUCACUUAGACGUGGAUAUGGAAACUAGUAAGUGAUGA-ACGACAUACACAAUCCUAAAGAUACAUUUGAGAACUAUGUAUGUACAUCGCAUACUUUUAC
.......((((((..(((.((((.....)))))))....(....)..(((.((((((.-...(((((((...((.((((......)))).))....))))))).)))))).))))))))) ( -27.70)
>consensus
CCUCGAUGUGGAAAACCAACGUCACUUAGACGUGGAUAUGGAAACUAGUAAGUGAUCA_ACAGCACAUACAGAUCUUAAGAUACUUUUAAAAACUACAUAC_UACAUCGGAUAUCCUAAC
...(((((((.....(((.((((.....)))))))....(....).........................................................)))))))........... (-16.73 = -16.48 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:12 2006