Locus 1576

Sequence ID 2L_DroMel_CAF1
Location 4,243,945 – 4,244,050
Length 105
Max. P 0.892649
window2536 window2537

overview

Window 6

Location 4,243,945 – 4,244,050
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 88.73
Mean single sequence MFE -26.50
Consensus MFE -21.42
Energy contribution -22.18
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.81
SVM decision value 0.15
SVM RNA-class probability 0.609788
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4243945 105 + 22407834
ACGAUGUGGCACUGCACGUUGCAUACAUGGUAGUAACCAUUAAUGCAACAUCAUGGGGGGAAAUACAUUUGCAAGGAAACUUCUUCUUCGAUGCAUAAAAACGUA
...((((.....((((((((((((..(((((....)))))..))))))).......((((((........(.(((....))))))))))).)))).....)))). ( -25.50)
>DroSec_CAF1 18974 105 + 1
GCGAUGUGGCACUGCACGUUGCAUACAUGGUAGUAACCAUUAAUGCAACAUCACGGGGGGAAAUACAUUUGCAAGGAAACUUCUUCUUCGAUGCAUUAAAAUUUA
((((((((......)))(((((((..(((((....)))))..)))))))))).((((((.(((....))).)(((....)))...)))))..))........... ( -26.40)
>DroEre_CAF1 22148 105 + 1
GCGAUGUGGCACAGAGCGUUGCAUACAUGGUUGUAACCAUUAAUGCAACAUCACGGGGGGAAAUACAUUUGCAAGGAAACUUCUUCGUCGAUGCAUAAAAACGUA
((..((.....))..))(((((((..(((((....)))))..)))))))((((((((((.(((....))).)(((....))))))))).)))............. ( -27.20)
>DroYak_CAF1 27774 96 + 1
GA---------GAGCGUGUUGCAUACAUGGUAGUAACCAUUAAUGCAACAUCACGGGGGGAAAUACAUUUGCAAGGAAACUUCUUCGUCGAUGCAUGAAAACGUA
..---------..(((((((((((..(((((....)))))..)))))))((((((((((.(((....))).)(((....))))))))).)))........)))). ( -26.90)
>consensus
GCGAUGUGGCACAGCACGUUGCAUACAUGGUAGUAACCAUUAAUGCAACAUCACGGGGGGAAAUACAUUUGCAAGGAAACUUCUUCGUCGAUGCAUAAAAACGUA
.............((..(((((((..(((((....)))))..)))))))((((((((((.(((....))).)(((....))))))))).)))))........... (-21.42 = -22.18 +   0.75)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 4,243,945 – 4,244,050
Length 105
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 88.73
Mean single sequence MFE -26.43
Consensus MFE -20.70
Energy contribution -21.08
Covariance contribution 0.37
Combinations/Pair 1.07
Mean z-score -2.14
Structure conservation index 0.78
SVM decision value 0.97
SVM RNA-class probability 0.892649
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4243945 105 - 22407834
UACGUUUUUAUGCAUCGAAGAAGAAGUUUCCUUGCAAAUGUAUUUCCCCCCAUGAUGUUGCAUUAAUGGUUACUACCAUGUAUGCAACGUGCAGUGCCACAUCGU
((((((....((((..((((......))))..)))))))))).........(((((((.(((((.(((((....)))))(((((...)))))))))).))))))) ( -27.40)
>DroSec_CAF1 18974 105 - 1
UAAAUUUUAAUGCAUCGAAGAAGAAGUUUCCUUGCAAAUGUAUUUCCCCCCGUGAUGUUGCAUUAAUGGUUACUACCAUGUAUGCAACGUGCAGUGCCACAUCGC
..........((((..((((......))))..))))...............(((((((.(((((.(((((....)))))(((((...)))))))))).))))))) ( -26.90)
>DroEre_CAF1 22148 105 - 1
UACGUUUUUAUGCAUCGACGAAGAAGUUUCCUUGCAAAUGUAUUUCCCCCCGUGAUGUUGCAUUAAUGGUUACAACCAUGUAUGCAACGCUCUGUGCCACAUCGC
((((((....((((..(((......)))....)))))))))).........((((((((((((..(((((....)))))..)))))))((.....))...))))) ( -25.60)
>DroYak_CAF1 27774 96 - 1
UACGUUUUCAUGCAUCGACGAAGAAGUUUCCUUGCAAAUGUAUUUCCCCCCGUGAUGUUGCAUUAAUGGUUACUACCAUGUAUGCAACACGCUC---------UC
((((((....((((..(((......)))....)))))))))).........(((.((((((((..(((((....)))))..)))))))))))..---------.. ( -25.80)
>consensus
UACGUUUUUAUGCAUCGAAGAAGAAGUUUCCUUGCAAAUGUAUUUCCCCCCGUGAUGUUGCAUUAAUGGUUACUACCAUGUAUGCAACGCGCAGUGCCACAUCGC
((((((....((((..((((......))))..)))))))))).............((((((((..(((((....)))))..))))))))................ (-20.70 = -21.08 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:50 2006