Locus 2464

Sequence ID 3R_DroMel_CAF1
Location 6,797,875 – 6,797,970
Length 95
Max. P 0.834975
window4034 window4035

overview

Window 4

Location 6,797,875 – 6,797,970
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 90.02
Mean single sequence MFE -28.46
Consensus MFE -19.18
Energy contribution -20.38
Covariance contribution 1.20
Combinations/Pair 1.00
Mean z-score -2.47
Structure conservation index 0.67
SVM decision value 0.09
SVM RNA-class probability 0.579065
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6797875 95 + 27905053
ACUCUUAUACUCUGGCCCUUGCCAGCCGUUCUGGCUUUCGAAAUCGAAUCGGCGGCAAGUGUUGGCCCACUUACAAGGCUCACACACACACACAC
............((((....))))((((..((((..((((....))))))))))))..((((.((((.........)))).)))).......... ( -26.10)
>DroSec_CAF1 56500 87 + 1
ACUCUUAUACGCUGGCCCUUGCCAGCCGUUCUGGCAUUCGAAAUCGAAUCGGCCAACAGCGUUGGCCCACUUACAGGGCUCACAC--------AA
..........((((((....)))))).(((((((.(((((....))))))(((((((...)))))))......))))))......--------.. ( -32.20)
>DroSim_CAF1 61633 87 + 1
ACUCUUAUACGCUGGCCCUUGCCAGCCGUUCUGGCUUUCGAAAUCGAAUCGUCGACCAGCGUUGGCCCACUUACAGGGCUCACAC--------AC
..........(((((.....(((((.....))))).((((....)))).......)))))((.(((((.......))))).))..--------.. ( -28.90)
>DroEre_CAF1 41777 87 + 1
ACUCUUAUACUCUGGCCCUUGCCAGCCGUUCUAGCUUUCGAAAUCGAAUCGGCGGCAAGCGUUGGCCCACUUACAGGGCUCACAC--------AC
.................((((((.((((........((((....)))).)))))))))).((.(((((.......))))).))..--------.. ( -27.90)
>DroYak_CAF1 54625 87 + 1
ACUCUUAUACGCUGGCCCUUGGCAGCCGUUCUGGCUUUCGAACUCGAAUCGGCGACAAGCGUUGGCCCACUUACAGGGCUCACAC--------AC
.........((((((((...)))((((.....))))((((....)))).)))))....(.((.(((((.......))))).)).)--------.. ( -27.20)
>consensus
ACUCUUAUACGCUGGCCCUUGCCAGCCGUUCUGGCUUUCGAAAUCGAAUCGGCGACAAGCGUUGGCCCACUUACAGGGCUCACAC________AC
..........((((((....)))))).......(((((((....))))..))).......((.(((((.......))))).))............ (-19.18 = -20.38 +   1.20)

alignment

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secondary structure

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dotplot

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Window 5

Location 6,797,875 – 6,797,970
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 90.02
Mean single sequence MFE -33.10
Consensus MFE -25.10
Energy contribution -25.02
Covariance contribution -0.08
Combinations/Pair 1.15
Mean z-score -1.99
Structure conservation index 0.76
SVM decision value 0.73
SVM RNA-class probability 0.834975
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6797875 95 - 27905053
GUGUGUGUGUGUGUGAGCCUUGUAAGUGGGCCAACACUUGCCGCCGAUUCGAUUUCGAAAGCCAGAACGGCUGGCAAGGGCCAGAGUAUAAGAGU
................((((((((....((((....((((((((((.(((.....(....)...))))))).))))))))))....)))))).)) ( -32.70)
>DroSec_CAF1 56500 87 - 1
UU--------GUGUGAGCCCUGUAAGUGGGCCAACGCUGUUGGCCGAUUCGAUUUCGAAUGCCAGAACGGCUGGCAAGGGCCAGCGUAUAAGAGU
..--------((((..((((.......))))..)))).(((((((.(((((....)))))(((((.....)))))...))))))).......... ( -38.70)
>DroSim_CAF1 61633 87 - 1
GU--------GUGUGAGCCCUGUAAGUGGGCCAACGCUGGUCGACGAUUCGAUUUCGAAAGCCAGAACGGCUGGCAAGGGCCAGCGUAUAAGAGU
..--------...((.((((.......))))))(((((((((.....((((....)))).(((((.....)))))...)))))))))........ ( -36.60)
>DroEre_CAF1 41777 87 - 1
GU--------GUGUGAGCCCUGUAAGUGGGCCAACGCUUGCCGCCGAUUCGAUUUCGAAAGCUAGAACGGCUGGCAAGGGCCAGAGUAUAAGAGU
..--------.(.((.((((((((((((......))))))).(((..((((....))))((((.....))))))).))))))).).......... ( -30.10)
>DroYak_CAF1 54625 87 - 1
GU--------GUGUGAGCCCUGUAAGUGGGCCAACGCUUGUCGCCGAUUCGAGUUCGAAAGCCAGAACGGCUGCCAAGGGCCAGCGUAUAAGAGU
((--------((((..((((((((((((......)))))).)((((.(((..((......))..))))))).....)))))..))))))...... ( -27.40)
>consensus
GU________GUGUGAGCCCUGUAAGUGGGCCAACGCUUGUCGCCGAUUCGAUUUCGAAAGCCAGAACGGCUGGCAAGGGCCAGCGUAUAAGAGU
..........((((..((((.......))))..)))).....(((..((((....)))).(((((.....)))))...))).............. (-25.10 = -25.02 +  -0.08)

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 10:36:58 2006