Locus 269

Sequence ID X_DroMel_CAF1
Location 907,937 – 908,042
Length 105
Max. P 0.939297
window411 window412

overview

Window 1

Location 907,937 – 908,042
Length 105
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 79.80
Mean single sequence MFE -20.57
Consensus MFE -15.97
Energy contribution -16.19
Covariance contribution 0.23
Combinations/Pair 1.10
Mean z-score -1.55
Structure conservation index 0.78
SVM decision value 0.43
SVM RNA-class probability 0.733262
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 907937 105 + 22224390
UGCAACUUAACUGUGUUUGGUCCAUUGCAACUUAAGUGUGUAAUGUUACACAUUGGACUAAAUCAAA-AGAACUUUAUUUCGUUCGUUUGGGUAGCACCCUACUAA
(((.((((((.((.((((((((((...........(((((((....)))))))))))))))))))..-.((((........))))..)))))).)))......... ( -26.40)
>DroSec_CAF1 22816 90 + 1
---------------CUGAGUCCAUUGCAACUUAUCUGUGUAAUGUUACACCUUGGACUUAAUCAAA-AGAACUCUAAAUCGUUCGAUUGGGUAGCACCCUACGAA
---------------.((((((((.((.(((((((....)))).))).))...)))))))).((((.-.((((........))))..))))((((....))))... ( -19.60)
>DroSim_CAF1 21518 91 + 1
---------------CUCAGUCCAUUGCAACUUAUCUGUGUAAUGUUACACCUUGGACUUAAUAAAAAAAAACUCUAAAUCGUUCGAUUGGGUAGCACCCUACGAA
---------------...((((((.((.(((((((....)))).))).))...)))))).......................((((...(((.....)))..)))) ( -15.70)
>consensus
_______________CUCAGUCCAUUGCAACUUAUCUGUGUAAUGUUACACCUUGGACUUAAUCAAA_AGAACUCUAAAUCGUUCGAUUGGGUAGCACCCUACGAA
................((((((((.............(((((....)))))..))))))))........((((........))))....(((.....)))...... (-15.97 = -16.19 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 907,937 – 908,042
Length 105
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 79.80
Mean single sequence MFE -22.17
Consensus MFE -19.92
Energy contribution -19.70
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.40
Structure conservation index 0.90
SVM decision value 1.30
SVM RNA-class probability 0.939297
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 907937 105 - 22224390
UUAGUAGGGUGCUACCCAAACGAACGAAAUAAAGUUCU-UUUGAUUUAGUCCAAUGUGUAACAUUACACACUUAAGUUGCAAUGGACCAAACACAGUUAAGUUGCA
...((((((.....))).(((((((........)))).-..((.(((.(((((...((((((.(((......))))))))).))))).)))))..)))....))). ( -23.00)
>DroSec_CAF1 22816 90 - 1
UUCGUAGGGUGCUACCCAAUCGAACGAUUUAGAGUUCU-UUUGAUUAAGUCCAAGGUGUAACAUUACACAGAUAAGUUGCAAUGGACUCAG---------------
......(((.....)))(((((((.((........)).-))))))).((((((...((((((.(((......))))))))).))))))...--------------- ( -23.00)
>DroSim_CAF1 21518 91 - 1
UUCGUAGGGUGCUACCCAAUCGAACGAUUUAGAGUUUUUUUUUAUUAAGUCCAAGGUGUAACAUUACACAGAUAAGUUGCAAUGGACUGAG---------------
((((..(((.....)))...)))).......................((((((...((((((.(((......))))))))).))))))...--------------- ( -20.50)
>consensus
UUCGUAGGGUGCUACCCAAUCGAACGAUUUAGAGUUCU_UUUGAUUAAGUCCAAGGUGUAACAUUACACAGAUAAGUUGCAAUGGACUAAG_______________
......(((.....)))....((((........))))...........(((((...((((((.(((......))))))))).)))))................... (-19.92 = -19.70 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:29 2006