Locus 3275

Sequence ID 3R_DroMel_CAF1
Location 8,740,927 – 8,741,017
Length 90
Max. P 0.999332
window5287 window5288

overview

Window 7

Location 8,740,927 – 8,741,017
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 93.78
Mean single sequence MFE -35.60
Consensus MFE -31.38
Energy contribution -32.47
Covariance contribution 1.09
Combinations/Pair 1.08
Mean z-score -2.47
Structure conservation index 0.88
SVM decision value 2.37
SVM RNA-class probability 0.992983
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8740927 90 + 27905053
GUCUGCCGGCCAAAAUGCGGCCAACAGCGACAAGGAGUGGCAUGUGGCUAAUAGGAUUUGGCCGCCACAUCGCCACGAGUGGGUUGACAU
(((.(((((((.......))))........((....((((((((((((.....((......))))))))).)))))...))))).))).. ( -37.10)
>DroSec_CAF1 167536 90 + 1
GUCUGCCGGCCAAAAUGCGGCCAACAGCGACAAGGAGUGGCAUGUGGCUAAUAGGAUUUGGCCGCCACAUCGCCACGAGUGGGUUGACAU
(((.(((((((.......))))........((....((((((((((((.....((......))))))))).)))))...))))).))).. ( -37.10)
>DroSim_CAF1 184721 90 + 1
GUCUGCCGGCCAAAAUGCGGCCAACAGCGACAAGGAGUGGCAUGUGGCUAAUAGGAUUUGGCCGCCACAUCGCCACGAGUGGGUUGACAU
(((.(((((((.......))))........((....((((((((((((.....((......))))))))).)))))...))))).))).. ( -37.10)
>DroEre_CAF1 183818 90 + 1
GUCUGCCGGCCAAAAUGCGGCCAACAGCGACAAGGAGUGGCAUGUGGCUAAUAGGAUUUGGCCGCCACAUCGCCACGAGUGGGUUGACAU
(((.(((((((.......))))........((....((((((((((((.....((......))))))))).)))))...))))).))).. ( -37.10)
>DroYak_CAF1 176268 90 + 1
GUCUGCCGGCCAAAAUGCGGCCAACAGCGACAAGGAGUGGCAUGUGGCUAAUAGGAUUUGGCCGCCACAUCGCCAUGAGUGGGUUGACAU
(((.(((((((.......))))........((....((((((((((((.....((......))))))))).)))))...))))).))).. ( -35.60)
>DroAna_CAF1 156481 80 + 1
GUCUGCCGGCCAAAAUGCGGCC---AGCGACAAAGAGUGGCAUGUGGCUAAUAGGAUUUGGCUGCCACAACUGCAGGAGUGGG-------
(((.((.((((.......))))---.))))).....((((((....(((((......)))))))))))..(..(....)..).------- ( -29.60)
>consensus
GUCUGCCGGCCAAAAUGCGGCCAACAGCGACAAGGAGUGGCAUGUGGCUAAUAGGAUUUGGCCGCCACAUCGCCACGAGUGGGUUGACAU
(((.(((((((.......))))........((....((((((((((((.....((......))))))))).)))))...))))).))).. (-31.38 = -32.47 +   1.09)

alignment

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secondary structure

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dotplot

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Window 8

Location 8,740,927 – 8,741,017
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 93.78
Mean single sequence MFE -33.94
Consensus MFE -30.64
Energy contribution -31.81
Covariance contribution 1.17
Combinations/Pair 1.00
Mean z-score -2.91
Structure conservation index 0.90
SVM decision value 3.52
SVM RNA-class probability 0.999332
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8740927 90 - 27905053
AUGUCAACCCACUCGUGGCGAUGUGGCGGCCAAAUCCUAUUAGCCACAUGCCACUCCUUGUCGCUGUUGGCCGCAUUUUGGCCGGCAGAC
..............(((((.(((((((...............)))))))))))).........((((((((((.....)))))))))).. ( -36.16)
>DroSec_CAF1 167536 90 - 1
AUGUCAACCCACUCGUGGCGAUGUGGCGGCCAAAUCCUAUUAGCCACAUGCCACUCCUUGUCGCUGUUGGCCGCAUUUUGGCCGGCAGAC
..............(((((.(((((((...............)))))))))))).........((((((((((.....)))))))))).. ( -36.16)
>DroSim_CAF1 184721 90 - 1
AUGUCAACCCACUCGUGGCGAUGUGGCGGCCAAAUCCUAUUAGCCACAUGCCACUCCUUGUCGCUGUUGGCCGCAUUUUGGCCGGCAGAC
..............(((((.(((((((...............)))))))))))).........((((((((((.....)))))))))).. ( -36.16)
>DroEre_CAF1 183818 90 - 1
AUGUCAACCCACUCGUGGCGAUGUGGCGGCCAAAUCCUAUUAGCCACAUGCCACUCCUUGUCGCUGUUGGCCGCAUUUUGGCCGGCAGAC
..............(((((.(((((((...............)))))))))))).........((((((((((.....)))))))))).. ( -36.16)
>DroYak_CAF1 176268 90 - 1
AUGUCAACCCACUCAUGGCGAUGUGGCGGCCAAAUCCUAUUAGCCACAUGCCACUCCUUGUCGCUGUUGGCCGCAUUUUGGCCGGCAGAC
...............((((.(((((((...............)))))))))))..........((((((((((.....)))))))))).. ( -32.76)
>DroAna_CAF1 156481 80 - 1
-------CCCACUCCUGCAGUUGUGGCAGCCAAAUCCUAUUAGCCACAUGCCACUCUUUGUCGCU---GGCCGCAUUUUGGCCGGCAGAC
-------.........(((..((((((...............)))))))))........((((((---(((((.....)))))))).))) ( -26.26)
>consensus
AUGUCAACCCACUCGUGGCGAUGUGGCGGCCAAAUCCUAUUAGCCACAUGCCACUCCUUGUCGCUGUUGGCCGCAUUUUGGCCGGCAGAC
..............((((((.((((((...............)))))))))))).........((((((((((.....)))))))))).. (-30.64 = -31.81 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:16 2006