Locus 947

Sequence ID 2R_DroMel_CAF1
Location 4,077,633 – 4,077,753
Length 120
Max. P 0.875661
window1694 window1695

overview

Window 4

Location 4,077,633 – 4,077,753
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -36.18
Consensus MFE -28.22
Energy contribution -27.94
Covariance contribution -0.28
Combinations/Pair 1.15
Mean z-score -1.96
Structure conservation index 0.78
SVM decision value 0.89
SVM RNA-class probability 0.875661
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4077633 120 + 20766785
UAUAGGCAGAGGUGUCUCGUGUGGAACACCUUUCCUCUUCCAAUAUGAGAAGAUUUUUAUAUGCAAACUGUAGGCCAAGCCCAAAACCACGCCCACAAGGGCGAUUGUAAACAACAUUGC
....((.((((((((..(....)..))))))))))((((((.....).)))))........(((((......(((...)))........(((((....))))).)))))........... ( -32.40)
>DroSec_CAF1 60398 120 + 1
UAUGGGCAGAGGUUUCUCGUGCGGAACACCUUUCCUCUUCCAAUAUGAGAAGAUUUUUAUAUGCAAACUGUAGGCCAAGGCCAAAACCGCGCCCACAAGGGCGAUUGUAAACAGCAUUGC
..((((.(((((......(((.....)))....)))))))))((((((((....))))))))((((.((((.(((....)))...((..(((((....)))))...))..))))..)))) ( -36.30)
>DroSim_CAF1 68604 120 + 1
UAUGGGCAGAGGUUUCUCGUGCGGAACACCUUUCCUCUUCCAAUAUGAGAAGAUUUUUAUAUGCAAACUGUAGGCCAAGGCCAAAACCGCGCCCACAAGGGCGAUUGUAAACAGCAUUGC
..((((.(((((......(((.....)))....)))))))))((((((((....))))))))((((.((((.(((....)))...((..(((((....)))))...))..))))..)))) ( -36.30)
>DroEre_CAF1 61717 120 + 1
UAGCGGCAGUGGCCUCUCGUGUGGAACUCCUUUCCUCUUCCAAUAAGAGAAGAUUUUCACAUGCAAACUGUAGGCCAAGGCCAGGACCACGCCCAAAAGGGCGAUUGUAAAAAGCAUUGC
..(((((..(((((((.(((((((((.((.....(((((.....)))))..)).)))))))))......).))))))..))).......(((((....)))))..........))..... ( -42.00)
>DroYak_CAF1 64682 120 + 1
CAGAGGCAGAGGUUUCUCGUGUGGAACACCUUUCUUCUUCCAAUAAGAGAAGAUUUUAACAUGCAAACUGUAGGCCAAGGCCAAGACCACGCCCAAAAGGGCGAUUGUAAACAGCAUUGC
.(((((.((((((((((.....)))).))))))))))).....(((((.....)))))....((((.((((.(((....))).......(((((....))))).......))))..)))) ( -33.90)
>consensus
UAUAGGCAGAGGUUUCUCGUGUGGAACACCUUUCCUCUUCCAAUAUGAGAAGAUUUUUAUAUGCAAACUGUAGGCCAAGGCCAAAACCACGCCCACAAGGGCGAUUGUAAACAGCAUUGC
....(((...((((((...(((((((.....))))((((((.....).))))).........)))....).)))))...))).......(((((....)))))................. (-28.22 = -27.94 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 5

Location 4,077,633 – 4,077,753
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.67
Mean single sequence MFE -36.98
Consensus MFE -29.10
Energy contribution -29.94
Covariance contribution 0.84
Combinations/Pair 1.03
Mean z-score -1.50
Structure conservation index 0.79
SVM decision value 0.14
SVM RNA-class probability 0.604271
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4077633 120 - 20766785
GCAAUGUUGUUUACAAUCGCCCUUGUGGGCGUGGUUUUGGGCUUGGCCUACAGUUUGCAUAUAAAAAUCUUCUCAUAUUGGAAGAGGAAAGGUGUUCCACACGAGACACCUCUGCCUAUA
((((...(((..((...(((((....)))))..))...((((...)))))))..)))).........((((((......))))))((..((((((..(....)..))))))...)).... ( -35.10)
>DroSec_CAF1 60398 120 - 1
GCAAUGCUGUUUACAAUCGCCCUUGUGGGCGCGGUUUUGGCCUUGGCCUACAGUUUGCAUAUAAAAAUCUUCUCAUAUUGGAAGAGGAAAGGUGUUCCGCACGAGAAACCUCUGCCCAUA
((((.(((((..((...(((((....)))))..))...(((....))).))))))))).........((((((......))))))((((.....))))(((.(((....))))))..... ( -37.40)
>DroSim_CAF1 68604 120 - 1
GCAAUGCUGUUUACAAUCGCCCUUGUGGGCGCGGUUUUGGCCUUGGCCUACAGUUUGCAUAUAAAAAUCUUCUCAUAUUGGAAGAGGAAAGGUGUUCCGCACGAGAAACCUCUGCCCAUA
((((.(((((..((...(((((....)))))..))...(((....))).))))))))).........((((((......))))))((((.....))))(((.(((....))))))..... ( -37.40)
>DroEre_CAF1 61717 120 - 1
GCAAUGCUUUUUACAAUCGCCCUUUUGGGCGUGGUCCUGGCCUUGGCCUACAGUUUGCAUGUGAAAAUCUUCUCUUAUUGGAAGAGGAAAGGAGUUCCACACGAGAGGCCACUGCCGCUA
..................((((....))))(((((..(((((((.((.........)).((((....((((((......))))))((((.....)))).)))).)))))))..))))).. ( -39.90)
>DroYak_CAF1 64682 120 - 1
GCAAUGCUGUUUACAAUCGCCCUUUUGGGCGUGGUCUUGGCCUUGGCCUACAGUUUGCAUGUUAAAAUCUUCUCUUAUUGGAAGAAGAAAGGUGUUCCACACGAGAAACCUCUGCCUCUG
((((.(((((..((...(((((....)))))..))...(((....))).))))))))).........((((((((....)).))))))...(((.....)))(((....)))........ ( -35.10)
>consensus
GCAAUGCUGUUUACAAUCGCCCUUGUGGGCGUGGUUUUGGCCUUGGCCUACAGUUUGCAUAUAAAAAUCUUCUCAUAUUGGAAGAGGAAAGGUGUUCCACACGAGAAACCUCUGCCCAUA
((((.(((((..((...(((((....)))))..))...(((....))).))))))))).........((((((......))))))((..((((.(..(....)..).))))...)).... (-29.10 = -29.94 +   0.84)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:32 2006