Locus 23

Sequence ID pao.154
Location 298,698 – 298,781
Length 83
Max. P 0.887370
window125 window126

overview

Window 5

Location 298,698 – 298,781
Length 83
Sequences 4
Columns 83
Reading direction forward
Mean pairwise identity 51.70
Mean single sequence MFE -23.48
Consensus MFE -6.60
Energy contribution -8.35
Covariance contribution 1.75
Combinations/Pair 1.23
Mean z-score -2.41
Structure conservation index 0.28
SVM decision value 0.07
SVM RNA-class probability 0.567867
Prediction RNA
WARNING Mean pairwise identity too low.

Download alignment: ClustalW | MAF

>pao.154 298698 83 + 6264404
AAAAAAGCCCCGCCUGAGCGAUUCAGGACGGGGCUUUCCUUUAGGCUUACUGCACCCACCAUGCACCCAUGAGAGGUGGCUUG
...(((((((((((((((...)))))).))))))))).......((.....))..(((((...((....))...))))).... ( -32.20)
>pau.152 290109 83 + 6537648
AAAAAAGCCCCGCCUGAGCGAUUCAGGACGGGGCUUUCCUUUAGGCUUACUGCACCCACCAUGCACCCAUGAGAGGUGGCUUG
...(((((((((((((((...)))))).))))))))).......((.....))..(((((...((....))...))))).... ( -32.20)
>pfo.1098 4261520 55 - 6438405
-AAAAAACCCCGGUCUUUCGACCAGGGUCUUUGCUAUCGAUUCCGA-------AUCAA--------CCAGA------------
-.(((.((((.((((....)))).)))).)))....(((....)))-------.....--------.....------------ ( -14.00)
>pf5.1251 4766809 55 - 7074893
-AAAAAACCCCGGUCUUGCGACCAGGGUCUUUGCUAUCGAUGCGAA-------ACAAG--------CUGUU------------
-.....((((.((((....)))).)))).(((((.......)))))-------.....--------.....------------ ( -15.50)
>consensus
_AAAAAACCCCGCCCGAGCGACCAAGGACGGGGCUAUCCAUUAGGA_______ACCAA________CCAUG____________
...(((((((((((((.......)))).))))))))).............................................. ( -6.60 =  -8.35 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 298,698 – 298,781
Length 83
Sequences 4
Columns 83
Reading direction reverse
Mean pairwise identity 51.70
Mean single sequence MFE -32.50
Consensus MFE -9.40
Energy contribution -11.15
Covariance contribution 1.75
Combinations/Pair 1.21
Mean z-score -4.70
Structure conservation index 0.29
SVM decision value 0.95
SVM RNA-class probability 0.887370
Prediction RNA
WARNING Mean pairwise identity too low.

Download alignment: ClustalW | MAF

>pao.154 298698 83 - 6264404
CAAGCCACCUCUCAUGGGUGCAUGGUGGGUGCAGUAAGCCUAAAGGAAAGCCCCGUCCUGAAUCGCUCAGGCGGGGCUUUUUU
...((.((((..((((....))))..))))))...........((((((((((((.(((((.....))))))))))))))))) ( -38.40)
>pau.152 290109 83 - 6537648
CAAGCCACCUCUCAUGGGUGCAUGGUGGGUGCAGUAAGCCUAAAGGAAAGCCCCGUCCUGAAUCGCUCAGGCGGGGCUUUUUU
...((.((((..((((....))))..))))))...........((((((((((((.(((((.....))))))))))))))))) ( -38.40)
>pfo.1098 4261520 55 + 6438405
------------UCUGG--------UUGAU-------UCGGAAUCGAUAGCAAAGACCCUGGUCGAAAGACCGGGGUUUUUU-
------------(((((--------.....-------))))).........(((((((((((((....))))))))))))).- ( -26.60)
>pf5.1251 4766809 55 + 7074893
------------AACAG--------CUUGU-------UUCGCAUCGAUAGCAAAGACCCUGGUCGCAAGACCGGGGUUUUUU-
------------....(--------((...-------.(((...))).)))(((((((((((((....))))))))))))).- ( -26.60)
>consensus
____________CAUGG________UGGGU_______GCCGAAACGAAAGCAAAGACCCGAAUCGCAAAACCGGGGCUUUUU_
.............................................((((((((((.((((.......)))))))))))))).. ( -9.40 = -11.15 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:05:32 2007