Locus 3429

Sequence ID 2L_DroMel_CAF1
Location 9,957,169 – 9,957,261
Length 92
Max. P 0.902306
window5432 window5433

overview

Window 2

Location 9,957,169 – 9,957,261
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 71.82
Mean single sequence MFE -17.06
Consensus MFE -6.74
Energy contribution -6.46
Covariance contribution -0.28
Combinations/Pair 1.29
Mean z-score -1.84
Structure conservation index 0.40
SVM decision value 0.52
SVM RNA-class probability 0.767078
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9957169 92 + 22407834
AUUUAUGUCAAACGCUAACAUAAUCAUAAAACUAGAAAAUAACAGGGCAUCAUAUAACUGGUACACCUAUCUUCUAGUUGCUGUAGAUUUUU
..((((((.........))))))(((((.((((((((.((...((((.((((......)))).).))))).))))))))..))).))..... ( -13.90)
>DroSec_CAF1 2606 92 + 1
AUUUAUGUCAACCGCUAACAACAUCAUAUAACUAGAAUAUGACAGGGUAUCCCACAUGGGGUACACCCAUCUUCUAGUUGCUGUAGUUUUGU
.................((((.((.((((((((((((.(((...(((((((((....))))))).))))).))))))))).))).)).)))) ( -26.20)
>DroSim_CAF1 2605 92 + 1
AUUUAUGUCAAACGCUAACAACAUCAUAUAACAAGAAUAUGACAGGGUAUCACACAGUCGGUACACCCAUCUUCUAGUUGCUGUAGUUUUAU
.............((((.((((.((((((.......))))))..(((((((........))))).)).........))))...))))..... ( -15.00)
>DroEre_CAF1 2619 81 + 1
AUUUAUUUUA-CUACUACAUUUACUAGUA----------UACCAGGGCAUCACAUAACCGGUGCACUAAUCAUCUAGUUGCUAUAGUUUUUU
..........-..((((.....(((((..----------....((.(((((........))))).))......))))).....))))..... ( -13.20)
>DroYak_CAF1 2604 90 + 1
AUUUAUAUAA-CUACUUCAAUCACUAUAAAUUUAUAAAUUAACAGGGCAUCAAAUAGUCGGUGCACCAAUCAUCUAGUUGCAGUAGUUU-UU
........((-(((((.((((...((((....))))........(((((((........))))).)).........)))).))))))).-.. ( -17.00)
>consensus
AUUUAUGUCAACCGCUAACAUCAUCAUAAAACUAGAAAAUAACAGGGCAUCACAUAACCGGUACACCAAUCUUCUAGUUGCUGUAGUUUUUU
............................................(((((((........))))).))......................... ( -6.74 =  -6.46 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 3

Location 9,957,169 – 9,957,261
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 71.82
Mean single sequence MFE -20.54
Consensus MFE -8.24
Energy contribution -7.80
Covariance contribution -0.44
Combinations/Pair 1.55
Mean z-score -1.98
Structure conservation index 0.40
SVM decision value 1.02
SVM RNA-class probability 0.902306
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9957169 92 - 22407834
AAAAAUCUACAGCAACUAGAAGAUAGGUGUACCAGUUAUAUGAUGCCCUGUUAUUUUCUAGUUUUAUGAUUAUGUUAGCGUUUGACAUAAAU
.........((..((((((((((((((.(((.((......)).)))))))))...))))))))...)).(((((((((...))))))))).. ( -22.50)
>DroSec_CAF1 2606 92 - 1
ACAAAACUACAGCAACUAGAAGAUGGGUGUACCCCAUGUGGGAUACCCUGUCAUAUUCUAGUUAUAUGAUGUUGUUAGCGGUUGACAUAAAU
.(((..(((((((((((((((((((((.(((.(((....))).)))))))))...))))))).......))))).)))...)))........ ( -27.11)
>DroSim_CAF1 2605 92 - 1
AUAAAACUACAGCAACUAGAAGAUGGGUGUACCGACUGUGUGAUACCCUGUCAUAUUCUUGUUAUAUGAUGUUGUUAGCGUUUGACAUAAAU
...((((...((((((........((((((..((....))..)))))).(((((((.......)))))))))))))...))))......... ( -19.00)
>DroEre_CAF1 2619 81 - 1
AAAAAACUAUAGCAACUAGAUGAUUAGUGCACCGGUUAUGUGAUGCCCUGGUA----------UACUAGUAAAUGUAGUAG-UAAAAUAAAU
.....((((((...(((((...(((((.(((.((......)).))).))))).----------..)))))...))))))..-.......... ( -17.50)
>DroYak_CAF1 2604 90 - 1
AA-AAACUACUGCAACUAGAUGAUUGGUGCACCGACUAUUUGAUGCCCUGUUAAUUUAUAAAUUUAUAGUGAUUGAAGUAG-UUAUAUAAAU
..-.((((((((((..((((((.((((....)))).)))))).))).((((.((((....)))).)))).......)))))-))........ ( -16.60)
>consensus
AAAAAACUACAGCAACUAGAAGAUGGGUGUACCGACUAUGUGAUGCCCUGUUAUAUUCUAGUUUUAUGAUGAUGUUAGCGGUUGACAUAAAU
.....................((((((.(((.((......)).)))))))))........................................ ( -8.24 =  -7.80 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:22 2006