Locus 26

Sequence ID 2R_DroMel_CAF1
Location 1,195,282 – 1,195,375
Length 93
Max. P 0.604991
window47 window48

overview

Window 7

Location 1,195,282 – 1,195,375
Length 93
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 80.43
Mean single sequence MFE -33.18
Consensus MFE -21.35
Energy contribution -21.60
Covariance contribution 0.26
Combinations/Pair 1.38
Mean z-score -1.48
Structure conservation index 0.64
SVM decision value 0.10
SVM RNA-class probability 0.581683
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1195282 93 + 20766785
AUAUUGGCCAUUGAGAAACAUGUUGGCCCGGUAGUCGCCACUGGCAGCGGCGAGCACUGCCAGGGUAAUGCACAGGGCGAGCUGCUCCCUGAA
.....(((((.((.....))...)))))..(((...(((.(((((((.(.....).))))))))))..))).(((((.(.....).))))).. ( -35.10)
>DroSec_CAF1 12354 93 + 1
AUAUUGGCCAUUUAGAAACAUGUUGGCCUGGUAGUCGCCACUGGCAGCGGCGAGCACUGCCAGGGUGAUGCACAGGGCGAGCUGCUCCCUGAA
.....(((((.............)))))..(((.(((((.(((((((.(.....).))))))))))))))).(((((.(.....).))))).. ( -38.62)
>DroSim_CAF1 10107 93 + 1
AUAUUGGCCAUUUAGAAACAUGUUGGCCUGGUAGUCGCCACUGGCAGCGGCGAGCACUGCCAGGGUGAUGCACAGGGCGAGCUGCUCCCUGAA
.....(((((.............)))))..(((.(((((.(((((((.(.....).))))))))))))))).(((((.(.....).))))).. ( -38.62)
>DroEre_CAF1 13626 93 + 1
GUACUGGCCGUUAAGAAACAUGUUGGCCUGGUAGUCACCAAUGACAGAGGCGAGCACUGCCAGGGUAAUGCAUAAGCCGAGCUGCUCCCUAAA
.(((((((((.............))))).))))((((....))))..(((.(((((..((..((.(........).))..))))))))))... ( -27.12)
>DroWil_CAF1 21668 93 + 1
AUAUUGGCCAUUGAGGAACAUAUUGCCCUUAUAGUUGGCAUUGGCCAGGGCCAGCAUGGCCAAUGGCAGGACUAACGCGAACUGCUUUCGACA
.(((((((((((((((..........)))))..((((((.((....)).))))))))))))))))((((..(......)..))))........ ( -31.40)
>DroYak_CAF1 9078 93 + 1
GUACCUCCCGUUUAGAAACAUGUUAGCCUGGUAGUCACCACUGGCAGAGGCGACCACUGCCAGGGUAAUGAAUAGGGCGAGCCGCUCCCUAAG
((..(((..(((....)))......((((....((.(((.(((((((.((...)).)))))))))).)).....)))))))..))........ ( -28.20)
>consensus
AUAUUGGCCAUUUAGAAACAUGUUGGCCUGGUAGUCGCCACUGGCAGCGGCGAGCACUGCCAGGGUAAUGCACAGGGCGAGCUGCUCCCUAAA
.(((((((((.............))))).))))...(((.(((((((.(.....).))))))))))......(((((.(.....).))))).. (-21.35 = -21.60 +   0.26)

alignment

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secondary structure

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dotplot

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Window 8

Location 1,195,282 – 1,195,375
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 80.43
Mean single sequence MFE -31.83
Consensus MFE -20.06
Energy contribution -18.87
Covariance contribution -1.19
Combinations/Pair 1.44
Mean z-score -1.58
Structure conservation index 0.63
SVM decision value 0.14
SVM RNA-class probability 0.604991
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1195282 93 - 20766785
UUCAGGGAGCAGCUCGCCCUGUGCAUUACCCUGGCAGUGCUCGCCGCUGCCAGUGGCGACUACCGGGCCAACAUGUUUCUCAAUGGCCAAUAU
....(((((((....((((.(((..(..(((((((((((.....))))))))).))..).))).)))).....)))))))............. ( -34.40)
>DroSec_CAF1 12354 93 - 1
UUCAGGGAGCAGCUCGCCCUGUGCAUCACCCUGGCAGUGCUCGCCGCUGCCAGUGGCGACUACCAGGCCAACAUGUUUCUAAAUGGCCAAUAU
..(((((.(.....).)))))....((.(((((((((((.....))))))))).)).))......(((((.............)))))..... ( -34.02)
>DroSim_CAF1 10107 93 - 1
UUCAGGGAGCAGCUCGCCCUGUGCAUCACCCUGGCAGUGCUCGCCGCUGCCAGUGGCGACUACCAGGCCAACAUGUUUCUAAAUGGCCAAUAU
..(((((.(.....).)))))....((.(((((((((((.....))))))))).)).))......(((((.............)))))..... ( -34.02)
>DroEre_CAF1 13626 93 - 1
UUUAGGGAGCAGCUCGGCUUAUGCAUUACCCUGGCAGUGCUCGCCUCUGUCAUUGGUGACUACCAGGCCAACAUGUUUCUUAACGGCCAGUAC
.((((((((((....(((((.....(((((.((((((.(....)..))))))..))))).....)))))....)))))))))).......... ( -27.40)
>DroWil_CAF1 21668 93 - 1
UGUCGAAAGCAGUUCGCGUUAGUCCUGCCAUUGGCCAUGCUGGCCCUGGCCAAUGCCAACUAUAAGGGCAAUAUGUUCCUCAAUGGCCAAUAU
........((((..(......)..)))).(((((((((..((((....)))).((((.........))))............))))))))).. ( -30.70)
>DroYak_CAF1 9078 93 - 1
CUUAGGGAGCGGCUCGCCCUAUUCAUUACCCUGGCAGUGGUCGCCUCUGCCAGUGGUGACUACCAGGCUAACAUGUUUCUAAACGGGAGGUAC
....(((((((....(((.......((((((((((((.((...)).))))))).)))))......))).....)))))))............. ( -30.42)
>consensus
UUCAGGGAGCAGCUCGCCCUAUGCAUUACCCUGGCAGUGCUCGCCGCUGCCAGUGGCGACUACCAGGCCAACAUGUUUCUAAAUGGCCAAUAU
....(((((((...................(((((((.........)))))))((((.........))))...)))))))............. (-20.06 = -18.87 +  -1.19)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:23:50 2006