Locus 6081

Sequence ID X_DroMel_CAF1
Location 15,609,833 – 15,610,025
Length 192
Max. P 0.973833
window9874 window9875 window9876

overview

Window 4

Location 15,609,833 – 15,609,953
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.53
Mean single sequence MFE -39.66
Consensus MFE -33.90
Energy contribution -34.02
Covariance contribution 0.12
Combinations/Pair 1.19
Mean z-score -2.53
Structure conservation index 0.85
SVM decision value 1.72
SVM RNA-class probability 0.973833
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15609833 120 + 22224390
UGCCAUCGCUUGUCGUCGUCUGGACACUGAGUAUGCCAUAUUUCUGGCACAACUGCCGGCAACCGGGACACAUAACGUUUCCGAUGUCCGAUCAUGGCGAUGGCAUUAUACUCAUGCAAA
((((((((((.((((.((((.(((.((..(((.(((((......)))))..))).((((...))))..........)).)))))))..))))...))))))))))............... ( -42.30)
>DroSec_CAF1 7934 120 + 1
UGCCAUCGCUCGUCGUCGUCUGGGCACUGAGUAUGCCAUAUUUCUGGCACAACUGCCGGCAACCGGGACACAUUACCUUUCCGAUGUCCGAUCAUGGCGAUGGCAUCAUACUCAUGCAAA
(((((((((.(((.(((((((.((..(((.((((((((......)))))....))))))...)).))))(((((........)))))..))).))))))))))))............... ( -41.80)
>DroSim_CAF1 7884 120 + 1
UGCCAUCGCUCGUCGUCGUCUGGACACUGAGUAUGCCAUAUUUCUGGCACAACUGCCGGCAACCGGGACACAUUACCUUUCCGAUGUCCGAUCAUGGCGAUGGCAUCAUACUCAUGCAAA
((((((((((.((((.((((.(((.....(((.((((......((((((....))))))......)).)).))).....)))))))..))))...))))))))))............... ( -40.10)
>DroEre_CAF1 7921 120 + 1
UGCCAUCGAUUGUGGUUGCCUGGACACUAAGUAUGCCAUAUUUCUGGUACAACUGCCGGCAACCAGGACACAUUGCCUUUCCCAUGUCCGAUCACAGAAAUGGCAUCAUACUAUUGCAAA
((((((...(((((((((((.((......(((.(((((......)))))..))).))))))))).(((((..............)))))....))))..))))))............... ( -34.44)
>consensus
UGCCAUCGCUCGUCGUCGUCUGGACACUGAGUAUGCCAUAUUUCUGGCACAACUGCCGGCAACCGGGACACAUUACCUUUCCGAUGUCCGAUCAUGGCGAUGGCAUCAUACUCAUGCAAA
(((((((((.(((.(((((((((...(((.((((((((......)))))....))))))...)))))..(((((........))))).)))).))))))))))))............... (-33.90 = -34.02 +   0.12)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,609,833 – 15,609,953
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.53
Mean single sequence MFE -40.58
Consensus MFE -34.64
Energy contribution -34.83
Covariance contribution 0.19
Combinations/Pair 1.09
Mean z-score -1.56
Structure conservation index 0.85
SVM decision value 0.31
SVM RNA-class probability 0.684319
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15609833 120 - 22224390
UUUGCAUGAGUAUAAUGCCAUCGCCAUGAUCGGACAUCGGAAACGUUAUGUGUCCCGGUUGCCGGCAGUUGUGCCAGAAAUAUGGCAUACUCAGUGUCCAGACGACGACAAGCGAUGGCA
...............(((((((((..((.((((((((((....))....))))))..(((((.((((.((((((((......)))))))...).)).)).).)))))))).))))))))) ( -44.00)
>DroSec_CAF1 7934 120 - 1
UUUGCAUGAGUAUGAUGCCAUCGCCAUGAUCGGACAUCGGAAAGGUAAUGUGUCCCGGUUGCCGGCAGUUGUGCCAGAAAUAUGGCAUACUCAGUGCCCAGACGACGACGAGCGAUGGCA
...............(((((((((.....(((..(.(((....((((((........))))))((((.((((((((......)))))))...).))))....))).).)))))))))))) ( -41.00)
>DroSim_CAF1 7884 120 - 1
UUUGCAUGAGUAUGAUGCCAUCGCCAUGAUCGGACAUCGGAAAGGUAAUGUGUCCCGGUUGCCGGCAGUUGUGCCAGAAAUAUGGCAUACUCAGUGUCCAGACGACGACGAGCGAUGGCA
...............(((((((((.......((((((.((...((((((........))))))......(((((((......))))))).)).))))))...((....)).))))))))) ( -40.40)
>DroEre_CAF1 7921 120 - 1
UUUGCAAUAGUAUGAUGCCAUUUCUGUGAUCGGACAUGGGAAAGGCAAUGUGUCCUGGUUGCCGGCAGUUGUACCAGAAAUAUGGCAUACUUAGUGUCCAGGCAACCACAAUCGAUGGCA
...............(((((((....((...(((((((..........)))))))((((((((((((.(.((((((......)))..)))..).)).)).))))))))))...))))))) ( -36.90)
>consensus
UUUGCAUGAGUAUGAUGCCAUCGCCAUGAUCGGACAUCGGAAAGGUAAUGUGUCCCGGUUGCCGGCAGUUGUGCCAGAAAUAUGGCAUACUCAGUGUCCAGACGACGACAAGCGAUGGCA
...............(((((((((.......((((((............))))))..(((((.((((.((((((((......)))))))...).))))..).)))).....))))))))) (-34.64 = -34.83 +   0.19)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,609,913 – 15,610,025
Length 112
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 87.65
Mean single sequence MFE -37.23
Consensus MFE -30.35
Energy contribution -30.60
Covariance contribution 0.25
Combinations/Pair 1.12
Mean z-score -1.70
Structure conservation index 0.82
SVM decision value 0.51
SVM RNA-class probability 0.763823
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15609913 112 + 22224390
CCGAUGUCCGAUCAUGGCGAUGGCAUUAUACUCAUGCAAAAGGAUACGCUAGAUAGCGAACUACUAGUGGCCAGUGAGAUGUAUGCCAAAGUAGGGGUCACAGAGGUGGACA
....(((((((((...((..((((((.((((((((......((...((((((.(((....))))))))).)).))))).)))))))))..))...))))((....))))))) ( -37.20)
>DroSec_CAF1 8014 112 + 1
CCGAUGUCCGAUCAUGGCGAUGGCAUCAUACUCAUGCAAAAGGAUUUGCUACAUGGCGAACUACUGGUGGCCAGUGAGGAGUAUGCCAAAGUGGGGGUCACAGAGGUGGGCA
....(((((((((.(.((..((((((....((((((((((....)))))....((((..((.....)).)))))))))....))))))..)).).))))((....))))))) ( -36.30)
>DroSim_CAF1 7964 112 + 1
CCGAUGUCCGAUCAUGGCGAUGGCAUCAUACUCAUGCAAAAGGAUUCGCUACAUGGCGAACUACUGGUGGCCAGUGAGGAGUAUGCCAGAGUGGGGGUCACAGAGGUGGGCA
....(((((((((.(.((..(((((...(((((...........((((((....)))))).((((((...))))))..))))))))))..)).).))))((....))))))) ( -37.70)
>DroEre_CAF1 8001 112 + 1
CCCAUGUCCGAUCACAGAAAUGGCAUCAUACUAUUGCAAAAGAGUUCCCUACAAGGGGAACUACUAGCGGCAAGUGAGGAGUAUGCCAAAGUGGGGGUCACAGUGGUGGAGA
......(((.(((((.....((((((....((.((((...((((((((((....)))))))).))....))))...))....))))))..(((.....))).)))))))).. ( -37.70)
>consensus
CCGAUGUCCGAUCAUGGCGAUGGCAUCAUACUCAUGCAAAAGGAUUCGCUACAUGGCGAACUACUAGUGGCCAGUGAGGAGUAUGCCAAAGUGGGGGUCACAGAGGUGGACA
....(((((((((...((..((((((....(((((((...((..((((((....))))))...))....))..)))))....))))))..))...))))((....))))))) (-30.35 = -30.60 +   0.25)

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 12:03:37 2006