Locus 750

Sequence ID X_DroMel_CAF1
Location 2,049,929 – 2,050,067
Length 138
Max. P 0.960219
window1215 window1216

overview

Window 5

Location 2,049,929 – 2,050,044
Length 115
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 86.75
Mean single sequence MFE -22.61
Consensus MFE -20.09
Energy contribution -19.42
Covariance contribution -0.66
Combinations/Pair 1.09
Mean z-score -1.72
Structure conservation index 0.89
SVM decision value 0.50
SVM RNA-class probability 0.761291
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2049929 115 - 22224390
AUUCAUCCAGUCAGCCCAUCAUUUUUGUAUUUCCCCUGCAAUCGCAAUCGAACUUUGCCCAUGCAGCCUUACUGCAGCUCAAAUUACAAAUCGAUUAGGCUCGCGUGCCAUCCAA
.........((.((((.(((...((((((........((....((((.......))))...(((((.....)))))))......))))))..)))..)))).))........... ( -22.84)
>DroSec_CAF1 16365 102 - 1
------------ACCCCGUCACUUUUGCUUUUCCCCUGCAAUCGCAAUCGAACUUUGCCCAUGCAGCC-UACUGCAGCUGAAAUUGCAAAUCGAUUAGGCUCGCGUGCCACCCAA
------------.....(((...(((((.((((....((....((((.......))))...(((((..-..))))))).))))..)))))..)))..(((......)))...... ( -22.70)
>DroSim_CAF1 14171 102 - 1
------------ACCCCAUCAUUUUUGCUUUUCCCCUGCAAUCGCAAUCGAACUUUGCCCAUGCAGCC-UACUGCAGCUGAACUUGCAAAUCGAUUAGGCUCGCGUGCCACCCAA
------------............((((.........))))....((((((..(((((.....((((.-.......)))).....))))))))))).(((......)))...... ( -22.30)
>consensus
____________ACCCCAUCAUUUUUGCUUUUCCCCUGCAAUCGCAAUCGAACUUUGCCCAUGCAGCC_UACUGCAGCUGAAAUUGCAAAUCGAUUAGGCUCGCGUGCCACCCAA
.................(((...(((((.........((....((((.......))))...(((((.....))))))).......)))))..)))..(((......)))...... (-20.09 = -19.42 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 2,049,964 – 2,050,067
Length 103
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 81.05
Mean single sequence MFE -12.87
Consensus MFE -12.19
Energy contribution -11.97
Covariance contribution -0.22
Combinations/Pair 1.08
Mean z-score -1.14
Structure conservation index 0.95
SVM decision value 1.51
SVM RNA-class probability 0.960219
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2049964 103 - 22224390
U----UUACCUAUUCAAAUUCUGCAAUAUUCAUCCAGUCAGCCCAUCAUUUUUGUAUUUCCCCUGCAAUCGCAAUCGAACUUUGCCCAUGCAGCCUUACUGCAGCUC
.----...............(((((.....................((....))........(((((...((((.......))))...)))))......)))))... ( -13.60)
>DroSec_CAF1 16400 92 - 1
UUGCUUUACUGAUUCAAAUUUUACA--------------ACCCCGUCACUUUUGCUUUUCCCCUGCAAUCGCAAUCGAACUUUGCCCAUGCAGCC-UACUGCAGCUG
((((......((..((((....((.--------------.....))....))))..))......))))..((((.......))))...(((((..-..))))).... ( -12.70)
>DroSim_CAF1 14206 92 - 1
UUGCUUUACUUAUUCAAAUUUUACA--------------ACCCCAUCAUUUUUGCUUUUCCCCUGCAAUCGCAAUCGAACUUUGCCCAUGCAGCC-UACUGCAGCUG
.........................--------------............((((.......(((((...((((.......))))...)))))..-....))))... ( -12.32)
>consensus
UUGCUUUACUUAUUCAAAUUUUACA______________ACCCCAUCAUUUUUGCUUUUCCCCUGCAAUCGCAAUCGAACUUUGCCCAUGCAGCC_UACUGCAGCUG
...................................................((((.......(((((...((((.......))))...))))).......))))... (-12.19 = -11.97 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:54 2006