Locus 7140

Sequence ID X_DroMel_CAF1
Location 17,924,447 – 17,924,540
Length 93
Max. P 0.867074
window11660 window11661

overview

Window 0

Location 17,924,447 – 17,924,540
Length 93
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 75.08
Mean single sequence MFE -19.90
Consensus MFE -12.70
Energy contribution -12.37
Covariance contribution -0.33
Combinations/Pair 1.12
Mean z-score -1.70
Structure conservation index 0.64
SVM decision value 0.85
SVM RNA-class probability 0.867074
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17924447 93 + 22224390
AUGACAUCAUCGAUAUCAUCGAUCUUUUCAAA-CAAUCACAAGCAUCGAUGUUUUUCGAGGAAUCAUCGAUGUUCUUCCAU---------ACAUCGGAGGACA
.(((.(..((((((...))))))..).)))..-.........(((((((((..(((....))).)))))))))((((((..---------.....)))))).. ( -23.80)
>DroSec_CAF1 1496 91 + 1
AUG------------UCAACGAUGUUUUCAAAAAAAUCGCAAUCAUCGAUGUUUUUCGAGGAAUCAUCGCUGUAGUUCCGUAUCAACUGCACAUCGUAUAAGA
...------------...((((((((((((((((.((((.......)))).))))).)))))........(((((((.......)))))))))))))...... ( -18.30)
>DroSim_CAF1 400 91 + 1
AUG------------UCAACGAUGUUUACAAAAAAAUCGCAAUCAUCGAUGUUUUUCGAGGAAUCAUCGCUGUAGUUCUGUAUCAACUGCACAUCGUAUAAGA
...------------...(((((((.................((.((((......)))).)).........((((((.......)))))))))))))...... ( -17.60)
>consensus
AUG____________UCAACGAUGUUUUCAAAAAAAUCGCAAUCAUCGAUGUUUUUCGAGGAAUCAUCGCUGUAGUUCCGUAUCAACUGCACAUCGUAUAAGA
..................(((((((....................((((......))))((((..((....))..))))...........)))))))...... (-12.70 = -12.37 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 17,924,447 – 17,924,540
Length 93
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 75.08
Mean single sequence MFE -21.27
Consensus MFE -14.10
Energy contribution -14.77
Covariance contribution 0.67
Combinations/Pair 1.09
Mean z-score -1.38
Structure conservation index 0.66
SVM decision value 0.14
SVM RNA-class probability 0.603592
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17924447 93 - 22224390
UGUCCUCCGAUGU---------AUGGAAGAACAUCGAUGAUUCCUCGAAAAACAUCGAUGCUUGUGAUUG-UUUGAAAAGAUCGAUGAUAUCGAUGAUGUCAU
.......((((((---------........))))))(((((((.((((....(((((((.(((.......-......))))))))))...)))).)).))))) ( -23.02)
>DroSec_CAF1 1496 91 - 1
UCUUAUACGAUGUGCAGUUGAUACGGAACUACAGCGAUGAUUCCUCGAAAAACAUCGAUGAUUGCGAUUUUUUUGAAAACAUCGUUGA------------CAU
((((((.((((.....))))))).)))....((((((((.((..((((((((.((((.......)))))))))))).)))))))))).------------... ( -19.90)
>DroSim_CAF1 400 91 - 1
UCUUAUACGAUGUGCAGUUGAUACAGAACUACAGCGAUGAUUCCUCGAAAAACAUCGAUGAUUGCGAUUUUUUUGUAAACAUCGUUGA------------CAU
((((((.((((.....))))))).)))....((((((((..((.((((......)))).))((((((.....)))))).)))))))).------------... ( -20.90)
>consensus
UCUUAUACGAUGUGCAGUUGAUACGGAACUACAGCGAUGAUUCCUCGAAAAACAUCGAUGAUUGCGAUUUUUUUGAAAACAUCGUUGA____________CAU
...............................((((((((.((..((((((((.((((.......)))))))))))))).))))))))................ (-14.10 = -14.77 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:07 2006