Locus 639

Sequence ID 2L_DroMel_CAF1
Location 1,917,175 – 1,917,280
Length 105
Max. P 0.703366
window1043 window1044

overview

Window 3

Location 1,917,175 – 1,917,280
Length 105
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 86.69
Mean single sequence MFE -26.60
Consensus MFE -17.55
Energy contribution -18.05
Covariance contribution 0.50
Combinations/Pair 1.12
Mean z-score -2.03
Structure conservation index 0.66
SVM decision value 0.36
SVM RNA-class probability 0.703366
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1917175 105 + 22407834
ACAACCCACCCACCGCAGUUGGCAAACAAACCACCUCCAACUUGGACCCCAAAAAGUGGCAAUGCAUUAGCCUUCUUUGGGGCUGCUCUCCAAUGCUUUGGACUU--
.........(((..((((((((..............)))))((((((((((((....(((.........)))...)))))))......))))))))..)))....-- ( -26.94)
>DroSec_CAF1 82006 101 + 1
--AACCCACCCACCGCAGUUGGCAAACAAACCACCUCCAACUUGGACC-CAAAAAGUGGCAAUGCAUUAGCCUUCUUUG-GGCUGCUCUCCAAUGCUUUGGGGUU--
--(((((.....((((.(((((..............)))))(((....-)))...))))(((.((((((((((.....)-))))).......)))).))))))))-- ( -27.45)
>DroSim_CAF1 65975 104 + 1
ACAACCCACCCACCGCAGUUGGCAAACAAGCCACCUCCAACUUGGACCCCAAAAAGUGGCAAUGCAUUAGCCUUCUUUG-GGCUGCUCUCCAAUGCUUUGGGGUU--
..(((((.....((((.(.((((......)))).)(((.....))).........))))(((.((((((((((.....)-))))).......)))).))))))))-- ( -30.71)
>DroEre_CAF1 82721 97 + 1
---------CCACCGAAGUCGGCAAACAAACCACCUCCAACUUGGACUUUAAAAAGUGGCAAUGCAUUAGCCUUCUACG-GGCUGCACUCAAAUACUUUUGGUUUUU
---------...(((....))).....(((((...(((.....))).....(((((((....((((...((((.....)-)))))))......)))))))))))).. ( -21.30)
>consensus
__AACCCACCCACCGCAGUUGGCAAACAAACCACCUCCAACUUGGACCCCAAAAAGUGGCAAUGCAUUAGCCUUCUUUG_GGCUGCUCUCCAAUGCUUUGGGGUU__
..............((((((((........))...(((.....)))......((((.(((.........)))..))))..)))))).((((((....)))))).... (-17.55 = -18.05 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 1,917,175 – 1,917,280
Length 105
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 86.69
Mean single sequence MFE -33.78
Consensus MFE -25.27
Energy contribution -26.02
Covariance contribution 0.75
Combinations/Pair 1.11
Mean z-score -1.55
Structure conservation index 0.75
SVM decision value 0.18
SVM RNA-class probability 0.619547
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1917175 105 - 22407834
--AAGUCCAAAGCAUUGGAGAGCAGCCCCAAAGAAGGCUAAUGCAUUGCCACUUUUUGGGGUCCAAGUUGGAGGUGGUUUGUUUGCCAACUGCGGUGGGUGGGUUGU
--...((((..(((((((..((((((((((((((.(((.........)))..)))))))))(((.....)))......)))))..)))).)))..))))........ ( -36.40)
>DroSec_CAF1 82006 101 - 1
--AACCCCAAAGCAUUGGAGAGCAGCC-CAAAGAAGGCUAAUGCAUUGCCACUUUUUG-GGUCCAAGUUGGAGGUGGUUUGUUUGCCAACUGCGGUGGGUGGGUU--
--..(((((..(((((((..(((((((-((((((.(((.........)))..))))))-))(((.....)))......)))))..)))).)))..)))).)....-- ( -35.90)
>DroSim_CAF1 65975 104 - 1
--AACCCCAAAGCAUUGGAGAGCAGCC-CAAAGAAGGCUAAUGCAUUGCCACUUUUUGGGGUCCAAGUUGGAGGUGGCUUGUUUGCCAACUGCGGUGGGUGGGUUGU
--..(((((..(((((((..(((((((-((((((.(((.........)))..)))))))).(((.....)))......)))))..)))).)))..)))).)...... ( -36.50)
>DroEre_CAF1 82721 97 - 1
AAAAACCAAAAGUAUUUGAGUGCAGCC-CGUAGAAGGCUAAUGCAUUGCCACUUUUUAAAGUCCAAGUUGGAGGUGGUUUGUUUGCCGACUUCGGUGG---------
.....(((...((((....))))...(-((.((..(((....(((..(((((((((.............))))))))).)))..)))..)).))))))--------- ( -26.32)
>consensus
__AACCCCAAAGCAUUGGAGAGCAGCC_CAAAGAAGGCUAAUGCAUUGCCACUUUUUGGGGUCCAAGUUGGAGGUGGUUUGUUUGCCAACUGCGGUGGGUGGGUU__
.....((((..(((((((.((((((((........))))........(((((((((.............)))))))))..)))).)))).)))..))))........ (-25.27 = -26.02 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:38 2006