Locus 68

Sequence ID	pao_1
Location	4,792,053 – 4,792,136
Length	83
Max. P	0.999992

overview

Window 2

Location	4,792,053 – 4,792,136
Length	83
Sequences	6
Columns	83
Reading direction	forward
Mean pairwise identity	94.83
Mean single sequence MFE	-34.20
Consensus MFE	-33.30
Energy contribution	-33.97
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-4.03
Structure conservation index	0.97
SVM decision value	5.66
SVM RNA-class probability	0.999992
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 4792053 83 + 1
AAUUGGUGGGUCUGGGCAGAUUCGAACUGCCGACCUCACCCUUAUCAGGGGUGCGCUCUAACCAACUGAGCUACAGACCCAAU
......(((((((((((((.......))))).....((((((.....)))))).((((.........))))..)))))))).. ( -36.10)
>pst_1 1 79 + 1
---UGGUGGGUCUGGGCAGAUUCGAACUGCCGACCUCACCCUUAUCAGGGGUGCGCUCUAACCAACUGAGCUACAGACCCAA-
---...(((((((((((((.......))))).....((((((.....)))))).((((.........))))..)))))))).- ( -36.10)
>pel_1 1 79 + 1
AAUUGGUAGGUCUGGGCAGAUUUGAACUGCCGACCUCACCCUUAUCAGGGGUGCGCUCUAACCAACUGAGCUACAGACC----
........(((((((((((.......))))).....((((((.....)))))).((((.........))))..))))))---- ( -30.40)
>ppk_1 1 79 + 1
AAUUGGUAGGUCUGGGCAGAUUUGAACUGCCGACCUCACCCUUAUCAGGGGUGCGCUCUAACCAACUGAGCUACAGACC----
........(((((((((((.......))))).....((((((.....)))))).((((.........))))..))))))---- ( -30.40)
>psp_1 1 83 + 1
AAUUGGUGGGUCUGGGCAGAUUCGAACUGCCGACCUCACCCUUAUCAGGGGUGCGCUCUAACCAACUGAGCUACAGACCCAAU
......(((((((((((((.......))))).....((((((.....)))))).((((.........))))..)))))))).. ( -36.10)
>pss_1 1 83 + 1
AAUUGGUGGGUCUGGGCAGAUUCGAACUGCCGACCUCACCCUUAUCAGGGGUGCGCUCUAACCAACUGAGCUACAGACCCAAU
......(((((((((((((.......))))).....((((((.....)))))).((((.........))))..)))))))).. ( -36.10)
>consensus
AAUUGGUGGGUCUGGGCAGAUUCGAACUGCCGACCUCACCCUUAUCAGGGGUGCGCUCUAACCAACUGAGCUACAGACCCAA_
......(((((((((((((.......))))).....((((((.....)))))).((((.........))))..)))))))).. (-33.30 = -33.97 +   0.67)

alignment

secondary structure

dotplot

Window 3

Location	4,792,053 – 4,792,136
Length	83
Sequences	6
Columns	83
Reading direction	reverse
Mean pairwise identity	94.83
Mean single sequence MFE	-32.53
Consensus MFE	-31.30
Energy contribution	-31.97
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.91
Structure conservation index	0.96
SVM decision value	5.00
SVM RNA-class probability	0.999968
Prediction	RNA

Download alignment: ClustalW | MAF

>pao_1 4792053 83 - 1
AUUGGGUCUGUAGCUCAGUUGGUUAGAGCGCACCCCUGAUAAGGGUGAGGUCGGCAGUUCGAAUCUGCCCAGACCCACCAAUU
..(((((((((((((.....)))))((.(.(((((.......))))).).))(((((.......)))))))))))))...... ( -34.00)
>pst_1 1 79 - 1
-UUGGGUCUGUAGCUCAGUUGGUUAGAGCGCACCCCUGAUAAGGGUGAGGUCGGCAGUUCGAAUCUGCCCAGACCCACCA---
-.(((((((((((((.....)))))((.(.(((((.......))))).).))(((((.......)))))))))))))...--- ( -34.00)
>pel_1 1 79 - 1
----GGUCUGUAGCUCAGUUGGUUAGAGCGCACCCCUGAUAAGGGUGAGGUCGGCAGUUCAAAUCUGCCCAGACCUACCAAUU
----(((((((((((.....)))))((.(.(((((.......))))).).))(((((.......)))))))))))........ ( -29.60)
>ppk_1 1 79 - 1
----GGUCUGUAGCUCAGUUGGUUAGAGCGCACCCCUGAUAAGGGUGAGGUCGGCAGUUCAAAUCUGCCCAGACCUACCAAUU
----(((((((((((.....)))))((.(.(((((.......))))).).))(((((.......)))))))))))........ ( -29.60)
>psp_1 1 83 - 1
AUUGGGUCUGUAGCUCAGUUGGUUAGAGCGCACCCCUGAUAAGGGUGAGGUCGGCAGUUCGAAUCUGCCCAGACCCACCAAUU
..(((((((((((((.....)))))((.(.(((((.......))))).).))(((((.......)))))))))))))...... ( -34.00)
>pss_1 1 83 - 1
AUUGGGUCUGUAGCUCAGUUGGUUAGAGCGCACCCCUGAUAAGGGUGAGGUCGGCAGUUCGAAUCUGCCCAGACCCACCAAUU
..(((((((((((((.....)))))((.(.(((((.......))))).).))(((((.......)))))))))))))...... ( -34.00)
>consensus
_UUGGGUCUGUAGCUCAGUUGGUUAGAGCGCACCCCUGAUAAGGGUGAGGUCGGCAGUUCGAAUCUGCCCAGACCCACCAAUU
..(((((((((((((.....)))))((.(.(((((.......))))).).))(((((.......)))))))))))))...... (-31.30 = -31.97 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Jan 18 11:50:10 2007