Locus 4586

Sequence ID 2R_DroMel_CAF1
Location 14,971,610 – 14,971,730
Length 120
Max. P 0.702609
window7358 window7359

overview

Window 8

Location 14,971,610 – 14,971,730
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 99.58
Mean single sequence MFE -25.80
Consensus MFE -25.80
Energy contribution -25.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.96
Structure conservation index 1.00
SVM decision value 0.35
SVM RNA-class probability 0.702197
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14971610 120 + 20766785
AAGUCGGUAAAAAGCAGAGCCUUUCCAAACCUAACCACUUUCGGGUAAACGGAAUCGGAAAAGGAACUGGGAAAAUCGAAAGAAAUUAAAUAAUAAUAUGCGUUACAUCGAUGGCAACAA
..((((((.....(((.....((((((..(((..((..(((((......)))))..))...)))...))))))..((....))...............))).....))))))(....).. ( -25.80)
>DroSim_CAF1 1499 120 + 1
AAGUCGGUAAAAAGCAGAGCCUUUCCAAACCUAACCACUUUCGGGUAAACGGAAUCGGAAAAGGAACUGGGAAAAUCGAAAGAAAUUAAAUAAUAAUAUGCGUUACAUCGAUGGCAACAC
..((((((.....(((.....((((((..(((..((..(((((......)))))..))...)))...))))))..((....))...............))).....))))))(....).. ( -25.80)
>DroEre_CAF1 1929 120 + 1
AAGUCGGUAAAAAGCAGAGCCUUUCCAAACCUAACCACUUUCGGGUAAACGGAAUCGGAAAAGGAACUGGGAAAAUCGAAAGAAAUUAAAUAAUAAUAUGCGUUACAUCGAUGGCAACAC
..((((((.....(((.....((((((..(((..((..(((((......)))))..))...)))...))))))..((....))...............))).....))))))(....).. ( -25.80)
>DroYak_CAF1 1627 120 + 1
AAGUCGGUAAAAAGCAGAGCCUUUCCAAACCUAACCACUUUCGGGUAAACGGAAUCGGAAAAGGAACUGGGAAAAUCGAAAGAAAUUAAAUAAUAAUAUGCGUUACAUCGAUGGCAACAC
..((((((.....(((.....((((((..(((..((..(((((......)))))..))...)))...))))))..((....))...............))).....))))))(....).. ( -25.80)
>consensus
AAGUCGGUAAAAAGCAGAGCCUUUCCAAACCUAACCACUUUCGGGUAAACGGAAUCGGAAAAGGAACUGGGAAAAUCGAAAGAAAUUAAAUAAUAAUAUGCGUUACAUCGAUGGCAACAC
..((((((.....(((.....((((((..(((..((..(((((......)))))..))...)))...))))))..((....))...............))).....))))))(....).. (-25.80 = -25.80 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,971,610 – 14,971,730
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 99.58
Mean single sequence MFE -27.39
Consensus MFE -26.93
Energy contribution -27.19
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.00
Structure conservation index 0.98
SVM decision value 0.36
SVM RNA-class probability 0.702609
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14971610 120 - 20766785
UUGUUGCCAUCGAUGUAACGCAUAUUAUUAUUUAAUUUCUUUCGAUUUUCCCAGUUCCUUUUCCGAUUCCGUUUACCCGAAAGUGGUUAGGUUUGGAAAGGCUCUGCUUUUUACCGACUU
..(((((.......)))))......................(((.......(((..(((((.((((..((....((((....).)))..)).)))))))))..)))........)))... ( -24.46)
>DroSim_CAF1 1499 120 - 1
GUGUUGCCAUCGAUGUAACGCAUAUUAUUAUUUAAUUUCUUUCGAUUUUCCCAGUUCCUUUUCCGAUUCCGUUUACCCGAAAGUGGUUAGGUUUGGAAAGGCUCUGCUUUUUACCGACUU
(((((((.......)))))))....................(((.......(((..(((((.((((..((....((((....).)))..)).)))))))))..)))........)))... ( -28.36)
>DroEre_CAF1 1929 120 - 1
GUGUUGCCAUCGAUGUAACGCAUAUUAUUAUUUAAUUUCUUUCGAUUUUCCCAGUUCCUUUUCCGAUUCCGUUUACCCGAAAGUGGUUAGGUUUGGAAAGGCUCUGCUUUUUACCGACUU
(((((((.......)))))))....................(((.......(((..(((((.((((..((....((((....).)))..)).)))))))))..)))........)))... ( -28.36)
>DroYak_CAF1 1627 120 - 1
GUGUUGCCAUCGAUGUAACGCAUAUUAUUAUUUAAUUUCUUUCGAUUUUCCCAGUUCCUUUUCCGAUUCCGUUUACCCGAAAGUGGUUAGGUUUGGAAAGGCUCUGCUUUUUACCGACUU
(((((((.......)))))))....................(((.......(((..(((((.((((..((....((((....).)))..)).)))))))))..)))........)))... ( -28.36)
>consensus
GUGUUGCCAUCGAUGUAACGCAUAUUAUUAUUUAAUUUCUUUCGAUUUUCCCAGUUCCUUUUCCGAUUCCGUUUACCCGAAAGUGGUUAGGUUUGGAAAGGCUCUGCUUUUUACCGACUU
(((((((.......)))))))....................(((.......(((..(((((.((((..((....((((....).)))..)).)))))))))..)))........)))... (-26.93 = -27.19 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:53 2006