Locus 53

Sequence ID pao_1
Location 4,767,261 – 4,767,331
Length 70
Max. P 0.942285
window142 window143

overview

Window 2

Location 4,767,261 – 4,767,331
Length 70
Sequences 6
Columns 70
Reading direction forward
Mean pairwise identity 97.71
Mean single sequence MFE -19.13
Consensus MFE -18.33
Energy contribution -18.33
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.77
Structure conservation index 0.96
SVM decision value 0.06
SVM RNA-class probability 0.565287
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 4767261 70 + 1
GUUGUAAACCUCUUGAGUGUACGGGGCUUUCACCCGCUAUGGCCGCCCAUUUCAGAGCGUUACACGACCA
(((((.(((((((.(((((..(((((......)))((....))))..))))).)))).)))..))))).. ( -21.20)
>pau_1 1 70 + 1
GUUGUAAACCUCUUGAGUGUACGGGGCUUUCACCCGCUAUGGCCGCCCAUUUCAGAGCGUUACACGACCA
(((((.(((((((.(((((..(((((......)))((....))))..))))).)))).)))..))))).. ( -21.20)
>pel_1 1 70 + 1
GUUGUAAACCUCAUGAGUGUACGGGGCUUUCACCCGCUAUGGCCGCCCAUUUCAGAGCGUUACACGACCA
(((((.((((((.((((((..(((((......)))((....))))..)).))))))).)))..))))).. ( -18.50)
>pfo_1 1 70 + 1
GUUGUAAACCUCAUGAGUGUACGGGGCUUUCACCCGCUAUGGCCGCCCAUUUCAGAGCGUUACACGACCA
(((((.((((((.((((((..(((((......)))((....))))..)).))))))).)))..))))).. ( -18.50)
>psp_1 1 68 + 1
GUUGUAAACCUCAUGAGUGUACGGGGCUUUCACCCGCUAUGGCCGCCCAUUUCAGAGCGUUACACGAC--
(((((.((((((.((((((..(((((......)))((....))))..)).))))))).)))..)))))-- ( -17.70)
>pss_1 1 68 + 1
GUUGUAAACCUCAUGAGUGUACGGGGCUUUCACCCGCUAUGGCCGCCCAUUUCAGAGCGUUACACGAC--
(((((.((((((.((((((..(((((......)))((....))))..)).))))))).)))..)))))-- ( -17.70)
>consensus
GUUGUAAACCUCAUGAGUGUACGGGGCUUUCACCCGCUAUGGCCGCCCAUUUCAGAGCGUUACACGACCA
(((((.((((((..(((((..(((((......)))((....))))..)))))..))).)))..))))).. (-18.33 = -18.33 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,767,261 – 4,767,331
Length 70
Sequences 6
Columns 70
Reading direction reverse
Mean pairwise identity 97.71
Mean single sequence MFE -21.30
Consensus MFE -21.30
Energy contribution -21.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -0.98
Structure conservation index 1.00
SVM decision value 1.32
SVM RNA-class probability 0.942285
Prediction RNA

Download alignment: ClustalW | MAF

>pao_1 4767261 70 - 1
UGGUCGUGUAACGCUCUGAAAUGGGCGGCCAUAGCGGGUGAAAGCCCCGUACACUCAAGAGGUUUACAAC
..((..((...(((((......)))))..))..))((((....)))).(((.(((.....))).)))... ( -21.30)
>pau_1 1 70 - 1
UGGUCGUGUAACGCUCUGAAAUGGGCGGCCAUAGCGGGUGAAAGCCCCGUACACUCAAGAGGUUUACAAC
..((..((...(((((......)))))..))..))((((....)))).(((.(((.....))).)))... ( -21.30)
>pel_1 1 70 - 1
UGGUCGUGUAACGCUCUGAAAUGGGCGGCCAUAGCGGGUGAAAGCCCCGUACACUCAUGAGGUUUACAAC
..((..((...(((((......)))))..))..))((((....)))).(((.(((.....))).)))... ( -21.30)
>pfo_1 1 70 - 1
UGGUCGUGUAACGCUCUGAAAUGGGCGGCCAUAGCGGGUGAAAGCCCCGUACACUCAUGAGGUUUACAAC
..((..((...(((((......)))))..))..))((((....)))).(((.(((.....))).)))... ( -21.30)
>psp_1 1 68 - 1
--GUCGUGUAACGCUCUGAAAUGGGCGGCCAUAGCGGGUGAAAGCCCCGUACACUCAUGAGGUUUACAAC
--((..((...(((((......)))))..))..))((((....)))).(((.(((.....))).)))... ( -21.30)
>pss_1 1 68 - 1
--GUCGUGUAACGCUCUGAAAUGGGCGGCCAUAGCGGGUGAAAGCCCCGUACACUCAUGAGGUUUACAAC
--((..((...(((((......)))))..))..))((((....)))).(((.(((.....))).)))... ( -21.30)
>consensus
UGGUCGUGUAACGCUCUGAAAUGGGCGGCCAUAGCGGGUGAAAGCCCCGUACACUCAUGAGGUUUACAAC
..((..((...(((((......)))))..))..))((((....)))).(((.(((.....))).)))... (-21.30 = -21.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:48:35 2007