Locus 56

Sequence ID pao.2545
Location 4,788,530 – 4,788,648
Length 118
Max. P 0.825009
window292 window293

overview

Window 2

Location 4,788,530 – 4,788,648
Length 118
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 84.41
Mean single sequence MFE -40.94
Consensus MFE -25.49
Energy contribution -26.88
Covariance contribution 1.39
Combinations/Pair 1.23
Mean z-score -3.38
Structure conservation index 0.62
SVM decision value 0.39
SVM RNA-class probability 0.715952
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2545 4788530 118 + 6264404
AAAGCAAAACCCCUGGU-CAUCGCUGACCAGGGGUUUUGGGAUAGGAGCUUGACGAUGACCUACUCUCACAUGGGGAGACCCCACACUACCAUCGGCGAUGCGUCGUUUCACUUCUGAG
....(((((((((((((-((....)))))))))))))))...((((((...(((((((..............(((....)))........((((...)))))))))))...)))))).. ( -49.50)
>pau.414 5799359 118 - 6537648
AAAGCAAAACCCCCGGU-CAUCGCUGACCAGGGGUUUUGGGAUAGGAGCUUGACGAUGACCUACUCUCACAUGGGGAGACCCCACACUACCAUCGGCGAUGCGUCGUUUCACUUCUGAG
....(((((((((.(((-((....))))).)))))))))...((((((...(((((((..............(((....)))........((((...)))))))))))...)))))).. ( -44.90)
>pss.3053 5947905 119 + 6093698
AAACAAAAACCCUCGACGCGUAAGCGAAGAGGGUUUCUGGAAUUCAAUCUUGACGAUGACCUACUCUCACAUGGGGAAACCCCACACUACCAUCGGCGAUACAUCGUUUCACUACUGAG
...((.((((((((..(((....)))..)))))))).))....(((.....(((((((..............(((....)))..(.((......)).)...))))))).......))). ( -37.20)
>pf5.74 6946833 118 - 7074893
AAGACAAAACCCCAACUGCAUGUGCAGUUGGGGUUUC-GGAAUUUAAUCUUGACGAUGACCUACUCUCACAUGGGGAAACCCCACACUACCAUCGGCGAUGCAUCGUUUCACUUCUGAG
.......((((((((((((....))))))))))))((-((((.........(((((((..............(((....)))........((((...)))))))))))....)))))). ( -41.62)
>pfo.66 6311676 118 - 6438405
AAAACAAAACCCCAACUGCUUUCGCAAUUGGGGUUUC-GGAAUUUAAUCUUGACGAUGACCUACUCUCACAUGGGGAAACCCCACACUACCAUCGGCGAUGCAUCGUUUCACUUCUGAG
.......((((((((.(((....))).))))))))((-((((.........(((((((..............(((....)))........((((...)))))))))))....)))))). ( -35.22)
>psp.2973 5779064 119 + 5928787
AAACAAAAACCCUCAACGCGUAAGCGAUGAGGGUUUCUGGAAUUUAAUCUUGACGAUGACCUACUCUCACAUGGGGAAACCCCACACUACCAUCGGCGAUACAUCGUUUCACUGCUGAG
...((.(((((((((.(((....))).))))))))).))............(((((((..............(((....)))..(.((......)).)...)))))))........... ( -37.20)
>consensus
AAAACAAAACCCCCAAUGCAUAAGCGAUCAGGGUUUCUGGAAUUUAAUCUUGACGAUGACCUACUCUCACAUGGGGAAACCCCACACUACCAUCGGCGAUGCAUCGUUUCACUUCUGAG
......(((((((((.(((....))).)))))))))...............(((((((..............(((....)))........((((...)))))))))))........... (-25.49 = -26.88 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,788,530 – 4,788,648
Length 118
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 84.41
Mean single sequence MFE -45.88
Consensus MFE -32.73
Energy contribution -32.90
Covariance contribution 0.17
Combinations/Pair 1.23
Mean z-score -3.22
Structure conservation index 0.71
SVM decision value 0.69
SVM RNA-class probability 0.825009
Prediction RNA

Download alignment: ClustalW | MAF

>pao.2545 4788530 118 - 6264404
CUCAGAAGUGAAACGACGCAUCGCCGAUGGUAGUGUGGGGUCUCCCCAUGUGAGAGUAGGUCAUCGUCAAGCUCCUAUCCCAAAACCCCUGGUCAGCGAUG-ACCAGGGGUUUUGCUUU
...((.(((.....((((.((.(((.((....(..(((((...)))))..)....)).))).))))))..))).))....(((((((((((((((....))-))))))))))))).... ( -48.10)
>pau.414 5799359 118 + 6537648
CUCAGAAGUGAAACGACGCAUCGCCGAUGGUAGUGUGGGGUCUCCCCAUGUGAGAGUAGGUCAUCGUCAAGCUCCUAUCCCAAAACCCCUGGUCAGCGAUG-ACCGGGGGUUUUGCUUU
...((.(((.....((((.((.(((.((....(..(((((...)))))..)....)).))).))))))..))).))....(((((((((((((((....))-))))))))))))).... ( -47.40)
>pss.3053 5947905 119 - 6093698
CUCAGUAGUGAAACGAUGUAUCGCCGAUGGUAGUGUGGGGUUUCCCCAUGUGAGAGUAGGUCAUCGUCAAGAUUGAAUUCCAGAAACCCUCUUCGCUUACGCGUCGAGGGUUUUUGUUU
.(((((..(((..(((((....(((.((....(..(((((...)))))..)....)).)))))))))))..)))))....(((((((((((..(((....)))..)))))))))))... ( -45.70)
>pf5.74 6946833 118 + 7074893
CUCAGAAGUGAAACGAUGCAUCGCCGAUGGUAGUGUGGGGUUUCCCCAUGUGAGAGUAGGUCAUCGUCAAGAUUAAAUUCC-GAAACCCCAACUGCACAUGCAGUUGGGGUUUUGUCUU
...(((......((((((....(((.((....(..(((((...)))))..)....)).))))))))).............(-((((((((((((((....)))))))))))))))))). ( -45.80)
>pfo.66 6311676 118 + 6438405
CUCAGAAGUGAAACGAUGCAUCGCCGAUGGUAGUGUGGGGUUUCCCCAUGUGAGAGUAGGUCAUCGUCAAGAUUAAAUUCC-GAAACCCCAAUUGCGAAAGCAGUUGGGGUUUUGUUUU
............((((((....(((.((....(..(((((...)))))..)....)).))))))))).............(-((((((((((((((....))))))))))))))).... ( -46.60)
>psp.2973 5779064 119 - 5928787
CUCAGCAGUGAAACGAUGUAUCGCCGAUGGUAGUGUGGGGUUUCCCCAUGUGAGAGUAGGUCAUCGUCAAGAUUAAAUUCCAGAAACCCUCAUCGCUUACGCGUUGAGGGUUUUUGUUU
............((((((....(((.((....(..(((((...)))))..)....)).))))))))).............((((((((((((.(((....))).))))))))))))... ( -41.70)
>consensus
CUCAGAAGUGAAACGAUGCAUCGCCGAUGGUAGUGUGGGGUUUCCCCAUGUGAGAGUAGGUCAUCGUCAAGAUUAAAUUCCAGAAACCCUAAUCGCCGAUGCACCGGGGGUUUUGCUUU
..............((((.((.(((.((....(..(((((...)))))..)....)).))).))))))..............((((((((((.(((....))).))))))))))..... (-32.73 = -32.90 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:08:33 2007