Locus 5314

Sequence ID X_DroMel_CAF1
Location 13,901,881 – 13,902,041
Length 160
Max. P 0.984725
window8598 window8599 window8600

overview

Window 8

Location 13,901,881 – 13,902,001
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.22
Mean single sequence MFE -38.62
Consensus MFE -25.84
Energy contribution -28.27
Covariance contribution 2.44
Combinations/Pair 1.05
Mean z-score -1.96
Structure conservation index 0.67
SVM decision value 0.30
SVM RNA-class probability 0.677549
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13901881 120 - 22224390
AACCCCAUUUCGAUGGGUGGAUCGGCCACUUGGCAGCCUCGAAAGGAUUUCUCCGCCCAGAACUGCAUUUACAUUUUAGUUGCCUGGGUCUGCGUUCAAGGUACUUUUGAUUAAUUGCUC
..((((((....))))).)((((((((....))).((((.(((.(((....)))((((((....(((.(((.....))).))))))))).....))).)))).....)))))........ ( -32.00)
>DroSec_CAF1 2494 120 - 1
AACCCCAUUUCGAUGGGUGGAGCGGCCACUUGGCAGCCUCGAAAGGGUUCCUCCGCCCAGAACUGUAUUUACAUUUUAGUUGCCUGGGUCUGUGUUCCACGGACUUUUGAUUAAUUGCUC
.....((.(((..(((((((((.((((....)))((((.(....)))))))))))))))))).))..........(((((((...(((((((((...))))))))).)))))))...... ( -39.40)
>DroSim_CAF1 24269 109 - 1
AACCCCAUUUCGAUGGGUGGAGCGG-----------CCUCGAAAGGGUUUCUCCGCCCAGAACUGCAUUUACAUUUUAGUGGCCUGGGUCUGUGUUCCACGGACUUUUGAUUAAUUGCUC
.............(((((((((..(-----------((.(....))))..))))))))).....(((.((((((....))).(..(((((((((...)))))))))..)..))).))).. ( -38.80)
>DroYak_CAF1 12464 120 - 1
AACCCCAUUUCAAUGGGUGGAGUGGCCAAUUGGCAGCCACGAAAGGGUUUCUCCGCCCAGAAUUGCAUUUACGUUUUAGUUGCAUGUGUCUGCAUUCAGGGGACUUUUGAUUAAUUGCUC
..((((.......(((((((((..(((....)))((((.(....))))).)))))))))((((.(((..(((((.........)))))..))))))).)))).................. ( -44.30)
>consensus
AACCCCAUUUCGAUGGGUGGAGCGGCCACUUGGCAGCCUCGAAAGGGUUUCUCCGCCCAGAACUGCAUUUACAUUUUAGUUGCCUGGGUCUGCGUUCAACGGACUUUUGAUUAAUUGCUC
.....((.(((..(((((((((..(((....)))((((.(....))))).)))))))))))).))......((..(((((((...((((((((.....)))))))).))))))).))... (-25.84 = -28.27 +   2.44)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,901,921 – 13,902,041
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.14
Mean single sequence MFE -41.19
Consensus MFE -33.94
Energy contribution -34.38
Covariance contribution 0.44
Combinations/Pair 1.10
Mean z-score -3.13
Structure conservation index 0.82
SVM decision value 1.98
SVM RNA-class probability 0.984725
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13901921 120 + 22224390
ACUAAAAUGUAAAUGCAGUUCUGGGCGGAGAAAUCCUUUCGAGGCUGCCAAGUGGCCGAUCCACCCAUCGAAAUGGGGUUUACUGCACGGUGGCAGCUCAACUGUAAUUACACUUUACUA
..((((.(((((.(((((((..(((.(((....))).)))(((.((((((.(((.(.......(((((....))))).......))))..)))))))))))))))).))))).))))... ( -42.64)
>DroSec_CAF1 2534 120 + 1
ACUAAAAUGUAAAUACAGUUCUGGGCGGAGGAACCCUUUCGAGGCUGCCAAGUGGCCGCUCCACCCAUCGAAAUGGGGUUUCCUGCGCCGUGGCAGCUCAACUGUAAUUACACUUUACUA
..((((.(((((.((((((..((((((.(((((((((((((((((.(((....))).))).......)))))..)))).))))).)((....)).))))))))))).))))).))))... ( -47.01)
>DroSim_CAF1 24309 109 + 1
ACUAAAAUGUAAAUGCAGUUCUGGGCGGAGAAACCCUUUCGAGG-----------CCGCUCCACCCAUCGAAAUGGGGUUUCCUGCGCCGUGGCAGCUCAACUGUAAUUACACUUUACUA
..((((.(((((.(((((((..(.((((.(((((((((((((((-----------.........)).)))))..))))))))))))((....))..)..))))))).))))).))))... ( -38.90)
>DroYak_CAF1 12504 120 + 1
ACUAAAACGUAAAUGCAAUUCUGGGCGGAGAAACCCUUUCGUGGCUGCCAAUUGGCCACUCCACCCAUUGAAAUGGGGUUUCCUGCGCCGUGGCAGCUCAACUGUAAUUACACUUUACUA
........((((.((((.......((((((......))))))((((((((...(((((.....(((((....)))))......)).))).))))))))....)))).))))......... ( -36.20)
>consensus
ACUAAAAUGUAAAUGCAGUUCUGGGCGGAGAAACCCUUUCGAGGCUGCCAAGUGGCCGCUCCACCCAUCGAAAUGGGGUUUCCUGCGCCGUGGCAGCUCAACUGUAAUUACACUUUACUA
..((((.(((((.((((((..((((((((((..((.(((((((((((.....)))))..........)))))).))..)))))(((......)))))))))))))).))))).))))... (-33.94 = -34.38 +   0.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,901,921 – 13,902,041
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.14
Mean single sequence MFE -45.02
Consensus MFE -36.60
Energy contribution -37.60
Covariance contribution 1.00
Combinations/Pair 1.06
Mean z-score -3.58
Structure conservation index 0.81
SVM decision value 1.93
SVM RNA-class probability 0.983097
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13901921 120 - 22224390
UAGUAAAGUGUAAUUACAGUUGAGCUGCCACCGUGCAGUAAACCCCAUUUCGAUGGGUGGAUCGGCCACUUGGCAGCCUCGAAAGGAUUUCUCCGCCCAGAACUGCAUUUACAUUUUAGU
...((((((((((...(((((..(((((......)))))..............((((((((...(((....)))....((....)).....)))))))).)))))...)))))))))).. ( -40.00)
>DroSec_CAF1 2534 120 - 1
UAGUAAAGUGUAAUUACAGUUGAGCUGCCACGGCGCAGGAAACCCCAUUUCGAUGGGUGGAGCGGCCACUUGGCAGCCUCGAAAGGGUUCCUCCGCCCAGAACUGUAUUUACAUUUUAGU
...((((((((((.((((((((((((((((.(((((.(....)(((((....)))))....)).)))...)))))).)))....((((......))))..))))))).)))))))))).. ( -51.20)
>DroSim_CAF1 24309 109 - 1
UAGUAAAGUGUAAUUACAGUUGAGCUGCCACGGCGCAGGAAACCCCAUUUCGAUGGGUGGAGCGG-----------CCUCGAAAGGGUUUCUCCGCCCAGAACUGCAUUUACAUUUUAGU
...((((((((((...(((((((((.((....)))).((.....))...))..(((((((((..(-----------((.(....))))..))))))))).)))))...)))))))))).. ( -44.90)
>DroYak_CAF1 12504 120 - 1
UAGUAAAGUGUAAUUACAGUUGAGCUGCCACGGCGCAGGAAACCCCAUUUCAAUGGGUGGAGUGGCCAAUUGGCAGCCACGAAAGGGUUUCUCCGCCCAGAAUUGCAUUUACGUUUUAGU
..(((((.(((((((...(((((((.((....)))).((.....))...)))))((((((((..(((....)))((((.(....))))).))))))))..))))))))))))........ ( -44.00)
>consensus
UAGUAAAGUGUAAUUACAGUUGAGCUGCCACGGCGCAGGAAACCCCAUUUCGAUGGGUGGAGCGGCCACUUGGCAGCCUCGAAAGGGUUUCUCCGCCCAGAACUGCAUUUACAUUUUAGU
...((((((((((...(((((...((((......))))...............(((((((((..(((....)))((((.(....))))).))))))))).)))))...)))))))))).. (-36.60 = -37.60 +   1.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:39 2006