Locus 6132

Sequence ID 2R_DroMel_CAF1
Location 19,291,278 – 19,291,372
Length 94
Max. P 0.754436
window9816 window9817

overview

Window 6

Location 19,291,278 – 19,291,372
Length 94
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 80.95
Mean single sequence MFE -17.82
Consensus MFE -10.48
Energy contribution -10.62
Covariance contribution 0.14
Combinations/Pair 1.20
Mean z-score -2.19
Structure conservation index 0.59
SVM decision value 0.48
SVM RNA-class probability 0.754436
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19291278 94 + 20766785
UUUACCCACACAAAUCAUAGUGGGCCACAACUUCUGGUACAACAGUCCCAUUUACUUGACUCAACGCUCCCCUUUUCGAGCGUUUCCAUUUUUU-------------
....(((((..........)))))...(((....(((.((....)).))).....)))....(((((((........)))))))..........------------- ( -18.10)
>DroSec_CAF1 41218 87 + 1
-------ACAGAAAUCAUAGUGGGCCACAACUUCUGGUACAACAGUCCCAUUUACUCGACUCAACGCUCCCCUUUUCGAGCGUUUCCAUUUUUU-------------
-------...........(((((((((.......)))).....((((..........)))).(((((((........))))))).)))))....------------- ( -16.00)
>DroSim_CAF1 31632 94 + 1
UUUACCCACACAAAUCAUAGUGGGCCACAACUUCUGGUACAACAGUCCCAUUUACUCGACUCAACGCUCCCCUUUUCGAGCGUUUCCAUUUUUU-------------
....(((((..........)))))..........(((......((((..........)))).(((((((........))))))).)))......------------- ( -18.10)
>DroEre_CAF1 34080 94 + 1
UUUGCCCACACAAAUCAUUGUGGCCCACAACUUCUGGUACAACCGUCCCAUUUACUUGAUUUAACGCUCCCCUUUUCGAGCGUUUCCAUUUUUU-------------
...........(((((((((((...)))))....(((.((....)).)))......))))))(((((((........)))))))..........------------- ( -16.60)
>DroYak_CAF1 31314 94 + 1
UUUGCCUACACAAAUCAUCGUGGCCCACAACUUCUGGUACAACAGUCCCAUUUACUUGAUUUAACGCUCCCCUUUUCGAGCGUUUCCAUUUUUU-------------
...........((((((..(((...)))......(((.((....)).)))......))))))(((((((........)))))))..........------------- ( -15.30)
>DroAna_CAF1 39737 106 + 1
UUUGUUUGGCCAACCUUUCGGCGCCGACAACUUCUGGUACA-UAAUCCCAUUUACUUGAUUUAGCGCGCCCCUUUUUGGCAGUUUCCAGUUUUGAACUUCCAGCCAG
......((((.........(((((.(......((.((((.(-(......)).)))).)).....))))))......(((.(((((........))))).))))))). ( -22.80)
>consensus
UUUGCCCACACAAAUCAUAGUGGCCCACAACUUCUGGUACAACAGUCCCAUUUACUUGACUCAACGCUCCCCUUUUCGAGCGUUUCCAUUUUUU_____________
........(((........)))............(((.((....)).)))............(((((((........)))))))....................... (-10.48 = -10.62 +   0.14)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,291,278 – 19,291,372
Length 94
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 80.95
Mean single sequence MFE -23.82
Consensus MFE -14.30
Energy contribution -14.83
Covariance contribution 0.53
Combinations/Pair 1.21
Mean z-score -1.92
Structure conservation index 0.60
SVM decision value 0.27
SVM RNA-class probability 0.660889
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19291278 94 - 20766785
-------------AAAAAAUGGAAACGCUCGAAAAGGGGAGCGUUGAGUCAAGUAAAUGGGACUGUUGUACCAGAAGUUGUGGCCCACUAUGAUUUGUGUGGGUAAA
-------------......(((.(((((((........)))))))...)))......(((.((....)).))).........((((((..........))))))... ( -24.70)
>DroSec_CAF1 41218 87 - 1
-------------AAAAAAUGGAAACGCUCGAAAAGGGGAGCGUUGAGUCGAGUAAAUGGGACUGUUGUACCAGAAGUUGUGGCCCACUAUGAUUUCUGU-------
-------------..........(((((((........))))))).((((..........)))).......(((((((..(((....)))..))))))).------- ( -23.80)
>DroSim_CAF1 31632 94 - 1
-------------AAAAAAUGGAAACGCUCGAAAAGGGGAGCGUUGAGUCGAGUAAAUGGGACUGUUGUACCAGAAGUUGUGGCCCACUAUGAUUUGUGUGGGUAAA
-------------......(((.(((((((........))))))).((((..........))))......))).........((((((..........))))))... ( -24.80)
>DroEre_CAF1 34080 94 - 1
-------------AAAAAAUGGAAACGCUCGAAAAGGGGAGCGUUAAAUCAAGUAAAUGGGACGGUUGUACCAGAAGUUGUGGGCCACAAUGAUUUGUGUGGGCAAA
-------------..........(((((((........)))))))....(((.(...(((.((....)).)))..).)))..(.(((((........))))).)... ( -21.60)
>DroYak_CAF1 31314 94 - 1
-------------AAAAAAUGGAAACGCUCGAAAAGGGGAGCGUUAAAUCAAGUAAAUGGGACUGUUGUACCAGAAGUUGUGGGCCACGAUGAUUUGUGUAGGCAAA
-------------..........(((((((........)))))))....................((((..((.((((..(.(....).)..)))).))...)))). ( -19.70)
>DroAna_CAF1 39737 106 - 1
CUGGCUGGAAGUUCAAAACUGGAAACUGCCAAAAAGGGGCGCGCUAAAUCAAGUAAAUGGGAUUA-UGUACCAGAAGUUGUCGGCGCCGAAAGGUUGGCCAAACAAA
.((((..(...(((......(....).(((.......)))(((((....(((.(...(((.....-....)))..).)))..))))).)))...)..))))...... ( -28.30)
>consensus
_____________AAAAAAUGGAAACGCUCGAAAAGGGGAGCGUUAAAUCAAGUAAAUGGGACUGUUGUACCAGAAGUUGUGGCCCACUAUGAUUUGUGUGGGCAAA
...................(((.(((((((........)))))))...)))......(((.((....)).))).(((((((((....)))))))))........... (-14.30 = -14.83 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:32 2006