Locus 2866

Sequence ID 2R_DroMel_CAF1
Location 9,906,662 – 9,906,822
Length 160
Max. P 0.839299
window4739 window4740

overview

Window 9

Location 9,906,662 – 9,906,782
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.50
Mean single sequence MFE -45.62
Consensus MFE -27.66
Energy contribution -28.37
Covariance contribution 0.70
Combinations/Pair 1.33
Mean z-score -1.79
Structure conservation index 0.61
SVM decision value 0.05
SVM RNA-class probability 0.558215
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9906662 120 + 20766785
CCUUGGGUGGGCGUAGAUUUUUCCUGGAGUCUCACGAGUAUGUCUUUCGGGAUAUCUACCAGGAUCGAAGGAUCUGCUCCUCGGCGUUCAUUGCCGUGGACCUGCCAUCGCCCAGUGGAC
(((((((((((((((((((((((((((((..((.((((.......)))).))...)).))))))....)))))))))(((.(((((.....))))).)))...)))..))))))).)).. ( -51.60)
>DroSec_CAF1 42791 120 + 1
CCUUGGGUGGGCGUACAUUUUUCCUGGAGUCUCACGAGUACGUCUUUCAGGAUAUCUACCAGGAUCGAAGGAUCUGCUCCUCGGCGUUCAUUGCCGUGGACUUGCCAUCGCCCAGUGGAC
(((((((((((((((.((...((((((((....(((....))).)))))))).)).)))..(((((....)))))..(((.(((((.....))))).)))...)))..))))))).)).. ( -45.60)
>DroEre_CAF1 33931 120 + 1
CAUUGGGUGGACGUAGAUUUUUCCUGGAGUCUCACGAGUACGUCUUUCGGGAUAUCUACCAGGAUCGAAGGAUCUGCUCCUCUGCGUUCAUUGCCGUGGACCUGCCAUCGCCCAGUGGAC
((((((((((..((((((...((((((((....(((....))).)))))))).))))))(((((((....))))...(((.(.(((.....))).).))).)))...))))))))))... ( -44.50)
>DroYak_CAF1 30111 120 + 1
CGUUGGGUGGACGCACAUUCUUCCUGGAGUCUCACGAGUACGUCUUUCGGGAUAUCUACCAGGAUCGAAGGAUCUGCUCCUCCGCGUUCAUUGCCGUUGACCUGCCAUCGCCCAGUGGAC
.....((.(((.(((.(((((((((((((..((.((((.......)))).))...)).))))))....))))).)))))).))..((((((((.((.((......)).))..)))))))) ( -37.30)
>DroMoj_CAF1 44116 120 + 1
CCCUGGGCAAUCGUCGCUUCCAGCUGAAGGGCGAGGACUAUGUGUUCCAUGAUAUCUUUCCGGAUCGCACGGUCUGCGCCUCGGCAUUCAUUGCCGUCGAUCUGCCCUCGCCCAGCGGAC
((((((((.......((.....)).((.(((((.((((..((((.(((..((......)).))).))))..)))).((...(((((.....))))).))...))))))))))))).)).. ( -49.20)
>DroAna_CAF1 29605 120 + 1
CCAUGGGAGGCCGUGCCUUCUUCCUGGAGGGCCACGAGUAUGUCUUUCGGGAUAUUUUCAAGGAUCAAAGAAUCUGCUCAUCGGCCUUUGUGGCCGUGGACCUGCCCUCCCCCCAAGGCC
((.((((((((...)))).......(((((((...(((.((((((....)))))).))).(((.(((..((......))..(((((.....)))))))).)))))))))).)))).)).. ( -45.50)
>consensus
CCUUGGGUGGACGUACAUUCUUCCUGGAGUCUCACGAGUACGUCUUUCGGGAUAUCUACCAGGAUCGAAGGAUCUGCUCCUCGGCGUUCAUUGCCGUGGACCUGCCAUCGCCCAGUGGAC
(.((((((((..(((.(((((....))))).(((((((((.((((((((....((((....)))))))))))).)))))...((((.....))))))))...)))..)))))))).)... (-27.66 = -28.37 +   0.70)

alignment

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secondary structure

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dotplot

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Window 0

Location 9,906,702 – 9,906,822
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.72
Mean single sequence MFE -36.99
Consensus MFE -20.94
Energy contribution -21.22
Covariance contribution 0.28
Combinations/Pair 1.35
Mean z-score -1.87
Structure conservation index 0.57
SVM decision value 0.74
SVM RNA-class probability 0.839299
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9906702 120 - 20766785
UAGUAUUUGCCCAAAAACACAUCCCCCAGAAUCCAGAGCGGUCCACUGGGCGAUGGCAGGUCCACGGCAAUGAACGCCGAGGAGCAGAUCCUUCGAUCCUGGUAGAUAUCCCGAAAGACA
..(((((((((........((((.(((((...((.....))....))))).))))...(.(((.((((.......)))).))).).((((....))))..)))))))))..(....)... ( -39.20)
>DroVir_CAF1 35410 120 - 1
UAGUACUUGCCCAGAAACACAUCACCCAGUAUCCACAACGGGCCACUGGGCGAGGGCAGAUCCACGGCUAUAAAUGCCGAGGCGCACACAGUGCGAUCCGAGAAAAUGUCGUGGAAUACA
..(((.((((((.(.....).((.((((((.(((.....)))..)))))).)))))))).((((((((........(.((..(((((...))))).)).).......)))))))).))). ( -43.36)
>DroGri_CAF1 37303 120 - 1
UAGUAUUUGCUCAGAAAUACAUCGCCCAGUAUCCACAGUGGUCCACUUGGCGAUGGUAGAUCCACGGCUAUAAAAGCCGAUGCGCAAACUGUACGAUCCGCAAAGAUAUCAUGGAAUACA
..((((((...........(((((((.(((..((.....))...))).)))))))(..((((..(((((.....))))).((((.....)))).))))..)............)))))). ( -35.10)
>DroWil_CAF1 62811 120 - 1
UAAUAUUUGCCUAGAAAUACAUCACCCAAUAUCCAUAAUGGACCACUGGGCGAAGGUAGGUCAACAGCAAUCAAGGCCGAGGCACACACAAUGCCAUCCUGAUAGGUAUCCUUAAAGAUA
.......((((((((..(((.((.((((...(((.....)))....)))).))..)))..))........(((.((....((((.......))))..)))))))))))............ ( -27.40)
>DroMoj_CAF1 44156 120 - 1
UAAUAUUUGCCCAGAAAUACAUCGCCCAAUAUCCAAAGUGGUCCGCUGGGCGAGGGCAGAUCGACGGCAAUGAAUGCCGAGGCGCAGACCGUGCGAUCCGGAAAGAUAUCAUGGAACACA
....(((((((((....)...(((((((....((.....)).....)))))))))))))))...(((((.....)))))..((((.....))))(.((((((......)).)))).)... ( -40.30)
>DroAna_CAF1 29645 120 - 1
UAGUACUUGCCCAGGAAGACGUCGCCCAGUAUCCAUAGAGGGCCUUGGGGGGAGGGCAGGUCCACGGCCACAAAGGCCGAUGAGCAGAUUCUUUGAUCCUUGAAAAUAUCCCGAAAGACA
..(.((((((((.(.....).((.(((((..(((.....)))..))))).)).)))))))).).(((((.....))))).......(((..(((.(....).)))..))).(....)... ( -36.60)
>consensus
UAGUAUUUGCCCAGAAAUACAUCGCCCAGUAUCCACAGUGGUCCACUGGGCGAGGGCAGAUCCACGGCAAUAAAGGCCGAGGCGCAGACAGUGCGAUCCGGAAAGAUAUCCUGAAAGACA
.......(((((.........((.((((((..((.....))...)))))).)))))))((((..((((.......))))..(((.......)))))))...................... (-20.94 = -21.22 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:31 2006