Locus 8018

Sequence ID 3R_DroMel_CAF1
Location 21,510,095 – 21,510,242
Length 147
Max. P 0.739830
window12906 window12907

overview

Window 6

Location 21,510,095 – 21,510,215
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 88.28
Mean single sequence MFE -49.17
Consensus MFE -35.74
Energy contribution -35.47
Covariance contribution -0.27
Combinations/Pair 1.31
Mean z-score -3.55
Structure conservation index 0.73
SVM decision value 0.45
SVM RNA-class probability 0.739830
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21510095 120 - 27905053
AUCAUGAAGCAGGGCAAGAUCGUAAUCGUCCUUAGCGGACGUUACGCCGGUCGCAAGGCCAUCAUCGUCAAGACCCACGACGAUGGAACCCCGGAGAAGCCCUUCGGACACGCCCUCGUC
........(((((((.....(((((.(((((.....))))))))))..((((....)))).((((((((.........))))))))....((((((.....))))))....))))).)). ( -47.80)
>DroVir_CAF1 36980 120 - 1
AUUAUGAAACAGGGCAAAAUCGUAAUCGUCCUUAGUGGACGUUACGCCGGCCGUAAGGCCAUCAUUGUGAAGACCUCCGAUGAUGGUACGCCGGAGAAGCCCUUCGGUCAUGCGCUCGUU
..(((((...(((((.....(((((.(((((.....))))))))))((((((....)((((((((((.((.....))))))))))))..)))))....)))))....)))))........ ( -50.70)
>DroGri_CAF1 34742 120 - 1
AUUAUGAAACAGGGCAAGAUCGUAAUCGUCCUUAGCGGACGUUACGCCGGCCGCAAGGCCAUCAUCGUGAAGACCCAUGACGAUGGCACCCCAGAGAAGCCCUUCGGUCAUGCGCUCGUC
..(((((...(((((....((((((.(((((.....)))))))))(((((((....))))(((.(((((......))))).))))))......))...)))))....)))))........ ( -47.90)
>DroWil_CAF1 33987 120 - 1
AUUAUGAAACAAGGCAAAAUCGUAAUCGUCCUUAGCGGACGUUACGCUGGCCGCAAAGCCAUCAUUGUCAAGACCUCUGAUGAUGGCACACCGGAGAAACCAUUCGGUCACGCUCUGGUU
............(((.....(((((.(((((.....))))))))))...))).....(((((((((............)))))))))..(((((((..(((....)))....))))))). ( -42.60)
>DroMoj_CAF1 39948 120 - 1
AUUAUGAAACAGGGCAAGAUCGUAAUCGUCCUCAGUGGACGUUACGCCGGCCGCAAGGCUAUCAUUGUGAAGACUUCCGAUGAUGGCACGCCGGAGAAGCCCUUCGGUCAUGCACUCGUU
..(((((...(((((.....(((((.(((((.....))))))))))((((((....)((((((((((.((.....))))))))))))..)))))....)))))....)))))........ ( -51.20)
>DroPer_CAF1 42454 120 - 1
AUCAUGAAGCAGGGCAAGAUCGUAAUCGUCCUUAGCGGACGUUACGCUGGCCGCAAGGCCAUCAUCGUCAAGACCUCCGACGAUGGCACCCCGGAGAAACCCUUCGGGCAUGCUCUGGUC
.........(((((((.....((((.(((((.....)))))))))(((((((....))))).(((((((.........)))))))))..(((((((.....)))))))..)))))))... ( -54.80)
>consensus
AUUAUGAAACAGGGCAAGAUCGUAAUCGUCCUUAGCGGACGUUACGCCGGCCGCAAGGCCAUCAUCGUCAAGACCUCCGACGAUGGCACCCCGGAGAAGCCCUUCGGUCAUGCGCUCGUC
...........((((.....(((((.(((((.....))))))))))..((((....))))...........).)))..(((((..((..(((((((.....)))))))...))..))))) (-35.74 = -35.47 +  -0.27)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 21,510,135 – 21,510,242
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.33
Mean single sequence MFE -30.72
Consensus MFE -25.09
Energy contribution -25.53
Covariance contribution 0.45
Combinations/Pair 1.15
Mean z-score -1.37
Structure conservation index 0.82
SVM decision value 0.11
SVM RNA-class probability 0.586704
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21510135 107 - 27905053
-------------ACAGAGCAAACCGCCAAGAUGAGGAAAAUCAUGAAGCAGGGCAAGAUCGUAAUCGUCCUUAGCGGACGUUACGCCGGUCGCAAGGCCAUCAUCGUCAAGACCCACGA
-------------............((....((((......))))...)).((((..((((((((.(((((.....))))))))))..((((....))))......)))..).))).... ( -29.90)
>DroVir_CAF1 37020 107 - 1
-------------GCAUGCACAGCCGCCAAGAUGAGGAAAAUUAUGAAACAGGGCAAAAUCGUAAUCGUCCUUAGUGGACGUUACGCCGGCCGUAAGGCCAUCAUUGUGAAGACCUCCGA
-------------.....(((((.(((((...((((((..(((((((............)))))))..)))))).))).)).......((((....))))....)))))........... ( -32.10)
>DroGri_CAF1 34782 101 - 1
-------------------ACAGCCGCCAAAAUGAGGAAAAUUAUGAAACAGGGCAAGAUCGUAAUCGUCCUUAGCGGACGUUACGCCGGCCGCAAGGCCAUCAUCGUGAAGACCCAUGA
-------------------...(((......((((......)))).......)))..((((((((.(((((.....))))))))))..((((....))))))).(((((......))))) ( -32.12)
>DroWil_CAF1 34027 100 - 1
--------------------UAGCCUUCAAGAUGAGGAAAAUUAUGAAACAAGGCAAAAUCGUAAUCGUCCUUAGCGGACGUUACGCUGGCCGCAAAGCCAUCAUUGUCAAGACCUCUGA
--------------------.............((((.......((...)).(((((...(((((.(((((.....)))))))))).((((......))))...)))))....))))... ( -24.30)
>DroMoj_CAF1 39988 107 - 1
-------------ACACGCACAGCCGCCAAGAUGAGGAAAAUUAUGAAACAGGGCAAGAUCGUAAUCGUCCUCAGUGGACGUUACGCCGGCCGCAAGGCUAUCAUUGUGAAGACUUCCGA
-------------.(((((..(((..(((...((((((..(((((((............)))))))..)))))).)))..)))..)).((((....))))......)))........... ( -33.20)
>DroAna_CAF1 30883 120 - 1
UCAACAGCAGUAUCGAGACAAAGCCGCCAAAAUGAGGAAGAUUAUGAAACAGGGCAAGAUCGUCAUCGUCCUUAGCGGACGUUACGCCGGCCGCAAGGCCAUCAUCGUCAAGACCUCCGA
......((.((...........)).))......((((..(((.((((.....(((..(((....)))((((.....)))).....)))((((....)))).)))).)))....))))... ( -32.70)
>consensus
______________CA__CACAGCCGCCAAGAUGAGGAAAAUUAUGAAACAGGGCAAGAUCGUAAUCGUCCUUAGCGGACGUUACGCCGGCCGCAAGGCCAUCAUCGUCAAGACCUCCGA
.................................((((...((.((((.....(((......((((.(((((.....))))))))))))((((....)))).)))).)).....))))... (-25.09 = -25.53 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:30 2006