Locus 1111

Sequence ID 2L_DroMel_CAF1
Location 3,010,778 – 3,010,898
Length 120
Max. P 0.839953
window1808 window1809

overview

Window 8

Location 3,010,778 – 3,010,898
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.44
Mean single sequence MFE -33.70
Consensus MFE -24.31
Energy contribution -24.99
Covariance contribution 0.67
Combinations/Pair 1.10
Mean z-score -1.43
Structure conservation index 0.72
SVM decision value 0.05
SVM RNA-class probability 0.557790
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3010778 120 + 22407834
UACCCUUGCCCUAGGGGUUCCUUUGUGGGCCCAAUAAGUUGGGCUAUAGAUCAGCAAUCUAUAGAUCUUAGCUGCGUGGCUAAUGAGUCACUUAAACCUAUAAUUACAAGGCGUCUGAUG
.(((((((...)))))))..((((((((((((((....))))))(((((..((((.(((....)))....)))).((((((....))))))......))))).))))))))......... ( -35.00)
>DroSec_CAF1 18193 99 + 1
UACCCUUGCCCUAGGGGUUGCUUUGUGGGCCCAAUAAGUUGGGCUAUAGAUCAGCA---------------------GACUAAUGAGUCACCAAAACCUAUAAUUACAAGUCGUUUGAUG
..((((......))))((((.(((((((.(((((....)))))))))))).)))).---------------------((((....))))............................... ( -26.90)
>DroEre_CAF1 18802 120 + 1
UACCCUUGCCCUAGGGGUUCCUUUGUGGGCCCCAGAAGUUGGGCUAUAGAUCAGCAGAUUAUAGAUCGUGACUUCGUGGCUAAUAAGUCACUGAAACCCAUAAUUACAGGGCGUCUGCUG
.......(((((.(((((((......))))))).(((((((((((((.((((....)))))))).)).)))))))((((((....))))))................)))))........ ( -39.20)
>consensus
UACCCUUGCCCUAGGGGUUCCUUUGUGGGCCCAAUAAGUUGGGCUAUAGAUCAGCA___UAUAGAUC_U__CU_CGUGGCUAAUGAGUCACUAAAACCUAUAAUUACAAGGCGUCUGAUG
.(((((((......(((((..(((((((.(((((....)))))))))))).........................((((((....))))))...))))).......))))).))...... (-24.31 = -24.99 +   0.67)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 3,010,778 – 3,010,898
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.44
Mean single sequence MFE -33.55
Consensus MFE -21.35
Energy contribution -22.13
Covariance contribution 0.78
Combinations/Pair 1.10
Mean z-score -2.04
Structure conservation index 0.64
SVM decision value 0.75
SVM RNA-class probability 0.839953
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3010778 120 - 22407834
CAUCAGACGCCUUGUAAUUAUAGGUUUAAGUGACUCAUUAGCCACGCAGCUAAGAUCUAUAGAUUGCUGAUCUAUAGCCCAACUUAUUGGGCCCACAAAGGAACCCCUAGGGCAAGGGUA
......((.((((((.......(((((..(((..((.(((((......)))))))..((((((((...))))))))((((((....)))))).)))....)))))......)))))))). ( -33.62)
>DroSec_CAF1 18193 99 - 1
CAUCAAACGACUUGUAAUUAUAGGUUUUGGUGACUCAUUAGUC---------------------UGCUGAUCUAUAGCCCAACUUAUUGGGCCCACAAAGCAACCCCUAGGGCAAGGGUA
((((((..(((((((....)))))))))))))((((.......---------------------((((........((((((....))))))......)))).(((...)))...)))). ( -26.34)
>DroEre_CAF1 18802 120 - 1
CAGCAGACGCCCUGUAAUUAUGGGUUUCAGUGACUUAUUAGCCACGAAGUCACGAUCUAUAAUCUGCUGAUCUAUAGCCCAACUUCUGGGGCCCACAAAGGAACCCCUAGGGCAAGGGUA
(((((((.((((.........))))....(((((((..........))))))).........))))))).......((((...((((((((.((.....))...))))))))...)))). ( -40.70)
>consensus
CAUCAGACGCCUUGUAAUUAUAGGUUUAAGUGACUCAUUAGCCACG_AG__A_GAUCUAUA___UGCUGAUCUAUAGCCCAACUUAUUGGGCCCACAAAGGAACCCCUAGGGCAAGGGUA
........(((((....(((..((((((.(((....((((((.......................)))))).....((((((....)))))).)))...))))))..)))....))))). (-21.35 = -22.13 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:58 2006