Locus 7706

Sequence ID 2L_DroMel_CAF1
Location 21,798,867 – 21,798,981
Length 114
Max. P 0.937120
window12377 window12378

overview

Window 7

Location 21,798,867 – 21,798,981
Length 114
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 78.26
Mean single sequence MFE -23.33
Consensus MFE -14.58
Energy contribution -15.70
Covariance contribution 1.12
Combinations/Pair 1.13
Mean z-score -2.20
Structure conservation index 0.62
SVM decision value 1.26
SVM RNA-class probability 0.937120
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21798867 114 + 22407834
GUAAAUGGUUCUCUGCUUGGAAAUACCAUCAUCUGUUGGUAUUUUUAUGAACUUUUAAAUCAAA-UGCUCAAUUCGGUUUUAAAAGUUCUGGUUUCAAAAGUUCCCAAGAUUAAA
...............(((((((((((((........))))))))....(((((((((((((.((-(.....))).)).)))))))))))...............)))))...... ( -24.20)
>DroSec_CAF1 41536 92 + 1
-----------------------UACCGACAUCUGUUGGUAUUUUUAUAAACUUUUAAUUCAAAGUGCUAAGUUCGCUUUUAAAAGUUCUGAUUUCAGAAGUUCCCAAGAUCAAA
-----------------------(((((((....))))))).........((((((((....(((((.......)))))))))))))((((....))))................ ( -17.60)
>DroSim_CAF1 34233 115 + 1
AUAAAUUGAUCUCUGCUUGGAAAUACCGACAUCUGUUGGUGUUUUAAUAAACUUUUAAUUCAAAGUGCUAAGUUCGCUUUUAAAAGUUCUGAUUUCAAAAGUUCCCAAGAUCAAA
.....(((((((..((((.(((((((((((....)))))))))))....(((((((((....(((((.......))))))))))))))..........)))).....))))))). ( -28.20)
>consensus
_UAAAU_G_UCUCUGCUUGGAAAUACCGACAUCUGUUGGUAUUUUUAUAAACUUUUAAUUCAAAGUGCUAAGUUCGCUUUUAAAAGUUCUGAUUUCAAAAGUUCCCAAGAUCAAA
...................(((((((((((....)))))))))))....(((((((((....(((((.......)))))))))))))).((((((............)))))).. (-14.58 = -15.70 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,798,867 – 21,798,981
Length 114
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 78.26
Mean single sequence MFE -21.43
Consensus MFE -12.65
Energy contribution -12.43
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.79
Structure conservation index 0.59
SVM decision value -0.02
SVM RNA-class probability 0.525657
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21798867 114 - 22407834
UUUAAUCUUGGGAACUUUUGAAACCAGAACUUUUAAAACCGAAUUGAGCA-UUUGAUUUAAAAGUUCAUAAAAAUACCAACAGAUGAUGGUAUUUCCAAGCAGAGAACCAUUUAC
(((...((((((((............(((((((((((..(((((.....)-)))).))))))))))).......(((((.(....).)))))))))))))...)))......... ( -24.30)
>DroSec_CAF1 41536 92 - 1
UUUGAUCUUGGGAACUUCUGAAAUCAGAACUUUUAAAAGCGAACUUAGCACUUUGAAUUAAAAGUUUAUAAAAAUACCAACAGAUGUCGGUA-----------------------
..((((.(..((....))..).))))((((((((((...((((........))))..)))))))))).......((((.((....)).))))----------------------- ( -16.20)
>DroSim_CAF1 34233 115 - 1
UUUGAUCUUGGGAACUUUUGAAAUCAGAACUUUUAAAAGCGAACUUAGCACUUUGAAUUAAAAGUUUAUUAAAACACCAACAGAUGUCGGUAUUUCCAAGCAGAGAUCAAUUUAU
.((((((((.((((............((((((((((...((((........))))..))))))))))........(((.((....)).)))..)))).....))))))))..... ( -23.80)
>consensus
UUUGAUCUUGGGAACUUUUGAAAUCAGAACUUUUAAAAGCGAACUUAGCACUUUGAAUUAAAAGUUUAUAAAAAUACCAACAGAUGUCGGUAUUUCCAAGCAGAGA_C_AUUUA_
....(((((((.......((....))((((((((((...((((........))))..)))))))))).........)))..)))).............................. (-12.65 = -12.43 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:13 2006