Locus 7472

Sequence ID 3R_DroMel_CAF1
Location 19,952,519 – 19,952,628
Length 109
Max. P 0.990967
window12080 window12081

overview

Window 0

Location 19,952,519 – 19,952,628
Length 109
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 68.66
Mean single sequence MFE -20.87
Consensus MFE -13.86
Energy contribution -13.53
Covariance contribution -0.32
Combinations/Pair 1.23
Mean z-score -1.60
Structure conservation index 0.66
SVM decision value 2.24
SVM RNA-class probability 0.990967
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19952519 109 + 27905053
UACUGUCCACUGUGCGUAUACGUGAU---------AAAUUAAGUAUACGCAGCGUUGUUGGUUCUAUUUCAACCUAGUUUAUAUAUACUUGAAUUUAUUUUCAUAUUUCAUUAUUUAC
...(((..(((((((((((((.(((.---------...))).))))))))).....(((((.......))))).))))..)))......((((......))))............... ( -17.50)
>DroSim_CAF1 11948 99 + 1
UACUGUCCACUCUGCGUAUACGUGAU---------AAAUUAAGUAUACGCAGCGCUAUCGGUUAUAGUUAAACCCAGUUU----------CAAUGUAUUUUCCUAUUUGAUUAUUUAC
.((((....(.((((((((((.(((.---------...))).)))))))))).)....)))).((((..(((..((....----------...))..)))..))))............ ( -20.70)
>DroEre_CAF1 12257 101 + 1
AGCAGUCCAUUGGGCGUAUACGUGAUUUAUUUCAAAAAUUAAGUAUACGCACUGCUGUCGGUUCUAGUUCAGUCUAGCUA-----------------UUUUCCAUUUGAAUAAUUUAC
((((((((...))((((((((.((((((.......)))))).))))))))))))))...((...(((((......)))))-----------------....))............... ( -24.40)
>consensus
UACUGUCCACUGUGCGUAUACGUGAU_________AAAUUAAGUAUACGCAGCGCUGUCGGUUCUAGUUCAACCUAGUUU___________AAU_UAUUUUCCUAUUUAAUUAUUUAC
.((((......((((((((((.((((...........)))).)))))))))).......((((.......))))))))........................................ (-13.86 = -13.53 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,952,519 – 19,952,628
Length 109
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 68.66
Mean single sequence MFE -20.30
Consensus MFE -12.33
Energy contribution -13.00
Covariance contribution 0.67
Combinations/Pair 1.18
Mean z-score -1.71
Structure conservation index 0.61
SVM decision value 1.93
SVM RNA-class probability 0.983010
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19952519 109 - 27905053
GUAAAUAAUGAAAUAUGAAAAUAAAUUCAAGUAUAUAUAAACUAGGUUGAAAUAGAACCAACAACGCUGCGUAUACUUAAUUU---------AUCACGUAUACGCACAGUGGACAGUA
........((((.(((....)))..))))...........(((.((((.......)))).....((((((((((((.......---------.....))))))))..))))...))). ( -18.70)
>DroSim_CAF1 11948 99 - 1
GUAAAUAAUCAAAUAGGAAAAUACAUUG----------AAACUGGGUUUAACUAUAACCGAUAGCGCUGCGUAUACUUAAUUU---------AUCACGUAUACGCAGAGUGGACAGUA
............................----------..((((((((.......))))....((.((((((((((.......---------.....)))))))))).))...)))). ( -23.00)
>DroEre_CAF1 12257 101 - 1
GUAAAUUAUUCAAAUGGAAAA-----------------UAGCUAGACUGAACUAGAACCGACAGCAGUGCGUAUACUUAAUUUUUGAAAUAAAUCACGUAUACGCCCAAUGGACUGCU
..............(((....-----------------...((((......))))..)))..((((((((((((((...((((.......))))...))))))))((...)))))))) ( -19.20)
>consensus
GUAAAUAAUCAAAUAGGAAAAUA_AUU___________AAACUAGGUUGAACUAGAACCGACAGCGCUGCGUAUACUUAAUUU_________AUCACGUAUACGCACAGUGGACAGUA
.........................................((((......))))..(((......((((((((((.....................))))))))))..)))...... (-12.33 = -13.00 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:55 2006