Locus 89

Sequence ID	pao.2417
Location	4,523,874 – 4,523,956
Length	82
Max. P	0.984774

overview

Window 3

Location	4,523,874 – 4,523,956
Length	82
Sequences	6
Columns	82
Reading direction	forward
Mean pairwise identity	77.83
Mean single sequence MFE	-34.52
Consensus MFE	-32.84
Energy contribution	-31.10
Covariance contribution	-1.74
Combinations/Pair	1.56
Mean z-score	-5.10
Structure conservation index	0.95
SVM decision value	1.21
SVM RNA-class probability	0.931320
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.2417 4523874 82 + 6264404
UUCCUAAGGCAGGCGCGGCUUAUCAGAAGUAAGCCAACCCCACCCCAGAAAAGCCGGCCACAAGCCGGCUUUUUUAAUGCCU
......(((((((...(((((((.....)))))))....)).....((((((((((((.....))))))))))))..))))) ( -34.60)
>pfo.2964 5629584 79 + 6438405
UUG--AAGGCUGGCGCGGUUUACCAAAAAUAAACCAAGCCAGUCCCCGAGAAGCCGGCCACAAGCCGGCUUUUU-AAUGCCU
...--..(((((((..((((((.......))))))..)))))))...(((((((((((.....)))))))))))-....... ( -36.00)
>psp.2719 5311234 79 + 5928787
UUG--AAGGUGAUUGCGGUCUAUCAAAAAUAGAUCGGAACCGCCUACGAGAAGCCGGCCACAAGCCGGCUUUUU-AAUGCCU
..(--.(((((.((.((((((((.....)))))))).)).))))).)(((((((((((.....)))))))))))-....... ( -35.40)
>pss.375 5381170 79 - 6093698
UUG--AAGGCGAUUGCGGUCUAUCAAAAAUAGAUCAGAAUUGCCUACGAGAAGCCGGCCACAAGCCGGCUUUUU-AAUGUCU
..(--.((((((((..(((((((.....)))))))..)))))))).)(((((((((((.....)))))))))))-....... ( -34.70)
>pel.303 5248283 79 - 5888780
UUU--AAGGCGGUUGCGGCUUAUCAAAAAUGAGCCAAGACCGUCCCCGAGAAGCCGGCCACAAGCCGGCUUUUU-AAUGCCC
...--..(((((((..(((((((.....)))))))..)))))))...(((((((((((.....)))))))))))-....... ( -37.60)
>ppk.300 5557816 75 - 6181863
GUU--AAGGCGAUUGCGGCUUACCAUAAAUUAGUCGGAAGCGUCCCCGAGAAGCCGGCCACAAGCCGGCUUUUU-AAU----
...--..((((.((.(((((...........))))).)).))))...(((((((((((.....)))))))))))-...---- ( -28.80)
>consensus
UUG__AAGGCGAUUGCGGCUUAUCAAAAAUAAACCAAAACCGCCCCCGAGAAGCCGGCCACAAGCCGGCUUUUU_AAUGCCU
.......(((((((..(((((((.....)))))))..)))))))...(((((((((((.....)))))))))))........ (-32.84 = -31.10 +  -1.74)

alignment

secondary structure

dotplot

Window 4

Location	4,523,874 – 4,523,956
Length	82
Sequences	6
Columns	82
Reading direction	reverse
Mean pairwise identity	77.83
Mean single sequence MFE	-30.88
Consensus MFE	-22.67
Energy contribution	-22.20
Covariance contribution	-0.47
Combinations/Pair	1.46
Mean z-score	-3.36
Structure conservation index	0.73
SVM decision value	1.98
SVM RNA-class probability	0.984774
Prediction	RNA

Download alignment: ClustalW | MAF

>pao.2417 4523874 82 - 6264404
AGGCAUUAAAAAAGCCGGCUUGUGGCCGGCUUUUCUGGGGUGGGGUUGGCUUACUUCUGAUAAGCCGCGCCUGCCUUAGGAA
...........((((((((.....))))))))((((((((..((((.(((((((....).)))))))).))..)))))))). ( -40.30)
>pfo.2964 5629584 79 - 6438405
AGGCAUU-AAAAAGCCGGCUUGUGGCCGGCUUCUCGGGGACUGGCUUGGUUUAUUUUUGGUAAACCGCGCCAGCCUU--CAA
.......-...((((((((.....))))))))...((((.(((((.((((((((.....)))))))).))))).)))--).. ( -36.80)
>psp.2719 5311234 79 - 5928787
AGGCAUU-AAAAAGCCGGCUUGUGGCCGGCUUCUCGUAGGCGGUUCCGAUCUAUUUUUGAUAGACCGCAAUCACCUU--CAA
.......-...((((((((.....))))))))...(.(((.((((.((.((((((...)))))).)).)))).))).--).. ( -27.60)
>pss.375 5381170 79 + 6093698
AGACAUU-AAAAAGCCGGCUUGUGGCCGGCUUCUCGUAGGCAAUUCUGAUCUAUUUUUGAUAGACCGCAAUCGCCUU--CAA
.......-...((((((((.....))))))))...(.((((.(((.((.((((((...)))))).)).))).)))).--).. ( -26.10)
>pel.303 5248283 79 + 5888780
GGGCAUU-AAAAAGCCGGCUUGUGGCCGGCUUCUCGGGGACGGUCUUGGCUCAUUUUUGAUAAGCCGCAACCGCCUU--AAA
((((...-...((((((((.....))))))))...(....)(((..(((((.(((...))).)))))..))))))).--... ( -32.30)
>ppk.300 5557816 75 + 6181863
----AUU-AAAAAGCCGGCUUGUGGCCGGCUUCUCGGGGACGCUUCCGACUAAUUUAUGGUAAGCCGCAAUCGCCUU--AAC
----...-...((((((((.....))))))))...((.((.(((((((.........))).)))).....)).))..--... ( -22.20)
>consensus
AGGCAUU_AAAAAGCCGGCUUGUGGCCGGCUUCUCGGGGACGGUUCUGACUUAUUUUUGAUAAACCGCAACCGCCUU__CAA
...........((((((((.....))))))))...((((.(((((.((.(((((.....))))).)).)))))))))..... (-22.67 = -22.20 +  -0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 21:11:54 2007