Locus 3642

Sequence ID 2L_DroMel_CAF1
Location 10,605,356 – 10,605,474
Length 118
Max. P 0.741437
window5746 window5747

overview

Window 6

Location 10,605,356 – 10,605,474
Length 118
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 87.82
Mean single sequence MFE -33.54
Consensus MFE -26.54
Energy contribution -27.42
Covariance contribution 0.88
Combinations/Pair 1.03
Mean z-score -1.54
Structure conservation index 0.79
SVM decision value 0.19
SVM RNA-class probability 0.627291
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10605356 118 + 22407834
AUAAUAAUUUCAAGUGCUCUUUCCUAUGUGAUGUCACUUGUGACUUGUGGCCAGAGGCAGACACGCGUUUCUCACUUAGCGACUGUCGCCAAC-CGCUGGCAGCACUUUAAAUGACUAA
......((((.(((((((..............((((....)))).....(((((.(((.((((..((((........))))..)))))))...-..)))))))))))).))))...... ( -34.60)
>DroSec_CAF1 84989 118 + 1
AUAAUAAUUUCAAGUGCUCUUUCCUAUGUGAUGUCACUUGUGACUUGUGGCCAGAGGCAGACACGCGUUUCUCACUUAGCGACUGUCGCCAGCGCGCUGGCAGCACUUUAAAUGAGUA-
......((((.(((((((....(((..((.((((((....))))..)).))...)))..((((..((((........))))..))))(((((....)))))))))))).)))).....- ( -34.60)
>DroSim_CAF1 85545 118 + 1
AUAUUAAUUUCAAGUGCUCUUUCCUAUGUGAUGUCACUUGUGACUUGUGGCCACAGGCAGACACGCGUUUCUCACUUAGCGACUGUCGCCAGCGCGCUGGCAGCACUUUAAAUGAGUA-
.((((.((((.(((((((........((((..(((((.........)))))))))(((((...(((............))).)))))(((((....)))))))))))).)))).))))- ( -36.80)
>DroEre_CAF1 86008 105 + 1
AUAAUAAUUUCAAGUGCUC-----UAUGUAGUGUCACU-------UGUGGCCAAAGGCAGACACGCGUUUCCCACUUAGCAACUGUCGCCGAG-CGCUGGGCGCACUUUAAAUGAGUU-
......((((.((((((..-----.((((.(((((.(.-------...)(((...))).)))))))))..((((((..((.......))..))-...)))).)))))).)))).....- ( -26.60)
>DroYak_CAF1 88155 110 + 1
AUAAUAAUUUCAAGUGCUCUCUCCUAUGUGAUGUCACU-------UGUGGCCAAAGGCAGACACGCGUUUCUCACUUAGCGACUGUCGCCGAC-UGCUGGGAGCACUUUAAAUGAGUU-
......((((.((((((((((......(((....))).-------...(((....(((.((((..((((........))))..)))))))...-.))))))))))))).)))).....- ( -35.10)
>consensus
AUAAUAAUUUCAAGUGCUCUUUCCUAUGUGAUGUCACUUGUGACUUGUGGCCAAAGGCAGACACGCGUUUCUCACUUAGCGACUGUCGCCAAC_CGCUGGCAGCACUUUAAAUGAGUA_
......((((.(((((((....((...(((..(((((.........)))))....(((.((((..((((........))))..)))))))....))).)).))))))).))))...... (-26.54 = -27.42 +   0.88)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 10,605,356 – 10,605,474
Length 118
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 87.82
Mean single sequence MFE -33.98
Consensus MFE -26.30
Energy contribution -26.90
Covariance contribution 0.60
Combinations/Pair 1.06
Mean z-score -1.73
Structure conservation index 0.77
SVM decision value 0.45
SVM RNA-class probability 0.741437
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10605356 118 - 22407834
UUAGUCAUUUAAAGUGCUGCCAGCG-GUUGGCGACAGUCGCUAAGUGAGAAACGCGUGUCUGCCUCUGGCCACAAGUCACAAGUGACAUCACAUAGGAAAGAGCACUUGAAAUUAUUAU
.((((.((((.(((((((.((((((-..((....))..))))..((((.......(((...(((...))))))..((((....)))).))))...))....))))))).)))).)))). ( -37.70)
>DroSec_CAF1 84989 118 - 1
-UACUCAUUUAAAGUGCUGCCAGCGCGCUGGCGACAGUCGCUAAGUGAGAAACGCGUGUCUGCCUCUGGCCACAAGUCACAAGUGACAUCACAUAGGAAAGAGCACUUGAAAUUAUUAU
-.....((((.(((((((.((((((.((((....))))))))..((((.......(((...(((...))))))..((((....)))).))))...))....))))))).))))...... ( -35.90)
>DroSim_CAF1 85545 118 - 1
-UACUCAUUUAAAGUGCUGCCAGCGCGCUGGCGACAGUCGCUAAGUGAGAAACGCGUGUCUGCCUGUGGCCACAAGUCACAAGUGACAUCACAUAGGAAAGAGCACUUGAAAUUAAUAU
-.....((((.(((((((..(((((((((((((.....))))).((.....))))))).)))((((((.......((((....))))....))))))....))))))).))))...... ( -37.50)
>DroEre_CAF1 86008 105 - 1
-AACUCAUUUAAAGUGCGCCCAGCG-CUCGGCGACAGUUGCUAAGUGGGAAACGCGUGUCUGCCUUUGGCCACA-------AGUGACACUACAUA-----GAGCACUUGAAAUUAUUAU
-.....((((.((((((((....((-((..((((...))))..))))(....)))(((((....((((....))-------)).)))))......-----..)))))).))))...... ( -28.50)
>DroYak_CAF1 88155 110 - 1
-AACUCAUUUAAAGUGCUCCCAGCA-GUCGGCGACAGUCGCUAAGUGAGAAACGCGUGUCUGCCUUUGGCCACA-------AGUGACAUCACAUAGGAGAGAGCACUUGAAAUUAUUAU
-.....((((.((((((((((...(-(.((((....))))))..((((....(((.(((..(((...))).)))-------.)))...))))...))...)))))))).))))...... ( -30.30)
>consensus
_UACUCAUUUAAAGUGCUGCCAGCG_GUUGGCGACAGUCGCUAAGUGAGAAACGCGUGUCUGCCUCUGGCCACAAGUCACAAGUGACAUCACAUAGGAAAGAGCACUUGAAAUUAUUAU
......((((.((((((((((((....)))))....((((((..(((.....)))(((...(((...))))))........))))))..............))))))).))))...... (-26.30 = -26.90 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:34 2006