Locus 1

Sequence ID	sy_au.0
Location	24,097 – 24,217
Length	120
Max. P	0.962289

overview

Window 1

Location	24,097 – 24,217
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	70.79
Mean single sequence MFE	-32.72
Consensus MFE	-25.30
Energy contribution	-23.80
Covariance contribution	-1.50
Combinations/Pair	1.16
Mean z-score	-0.57
Structure conservation index	0.77
SVM decision value	0.29
SVM RNA-class probability	0.669036
Prediction	RNA

Download alignment: ClustalW | MAF

>sy_au.0 24097 120 + 2809422/21-141
UCUUGUCAUGGCAAGAUUGGCUGUGCUAUAAUCUAUCUUGUGCUUAAGAACGGCUCCUUGGUCAAGCGGUUAAGACACCGCCCUUUCACGGCGGUAACACGGGUUCGAGUCCCGUAGGAG
((((((....))))))((((((((...........(((((....)))))..((((....))))..))))))))...((((((.......))))))...(((((.......)))))..... ( -36.00)
>sy_ha.0 22419 120 + 2685015/21-141
UCUUGUCUUCAAAAUAAAGCCUGUGCUAUAAUCUAUCUUGUGCUUAAGAACGGCUCCUUGGUCAAGCGGUUAAGACACCGCCCUUUCACGGCGGUAACACGGGUUCGAGUCCCGUAGGAG
(((((((((........((((...(((........(((((....)))))..((((....)))).))))))))))))((((((.......))))))...(((((.......))))))))). ( -31.40)
>sy_sa.0 24937 119 + 2516575/21-141
GCUUGUCAUC-CGGUAUAAGAGUUGAUAUAAUUUAUUUUGUGCUUAAGACAGGCUCCUUGGUCAAGCGGUUAAGACACCGCCCUUUCACGGCGGUAACACGGGUUCGAGUCCCGUAGGAG
(((((((...-.(((((((((...(((...)))..)))))))))...)))))))((((..(((..........)))((((((.......))))))...(((((.......))))))))). ( -37.40)
>sp_ag.0 3148 115 - 2160267/21-141
UUUUUCUGAUAUAAUAUUAAGAGUACUAAGGAAACACCUAACCU-----AUGGUCCGUUGGUCAAGGGGUUAAGACACCGCCUUUUCACGGCGGUAACACGGGUUCGAAUCCCGUACGGA
....((((..............((.((..(....)...((((((-----.((..(....)..))..))))))))))((((((.......))))))...(((((.......))))).)))) ( -31.00)
>sp_mu.0 4529 110 - 2030921/21-141
GAUAUUUGUUAUAAUAAUAAGAGUGUUGAUGAGACAUCUA----------UGGUCCGUUGGUCAAGGGGUUAAGACACCGCCUUUUCACGGCGGUAACACGGGUUCGAAUCCCGUACGGA
.(((..((((.((.(((((....))))).)).))))..))----------)..(((((..(((..........)))((((((.......))))))...(((((.......)))))))))) ( -27.80)
>sp_pn.0 181577 109 - 2038615/21-141
AAAAGGCUGUAUAAUAGUAAGAGUUGAAAAUAACAACUCA-----------GGUCCGUUGGUCAAGGGGUUAAGACACCGCCUUUUCACGGCGGUAACACGGGUUCGAAUCCCGUACGGA
......((((((........((((((.......)))))).-----------(..(....)..)..((((((..(((((((((.......)))))).......)))..)))))))))))). ( -32.71)
>consensus
UCUUGUCAUUAUAAUAUUAAGAGUGCUAAAAAAUAACUUAUGCU_____ACGGCCCCUUGGUCAAGCGGUUAAGACACCGCCCUUUCACGGCGGUAACACGGGUUCGAAUCCCGUACGAA
.....................................................(((((..(((..........)))((((((.......))))))...(((((.......)))))))))) (-25.30 = -23.80 +  -1.50)

alignment

secondary structure

dotplot

Window 2

Location	24,097 – 24,217
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	70.79
Mean single sequence MFE	-30.87
Consensus MFE	-26.40
Energy contribution	-24.90
Covariance contribution	-1.50
Combinations/Pair	1.18
Mean z-score	-1.05
Structure conservation index	0.86
SVM decision value	1.54
SVM RNA-class probability	0.962289
Prediction	RNA

Download alignment: ClustalW | MAF

>sy_au.0 24097 120 + 2809422/21-141
CUCCUACGGGACUCGAACCCGUGUUACCGCCGUGAAAGGGCGGUGUCUUAACCGCUUGACCAAGGAGCCGUUCUUAAGCACAAGAUAGAUUAUAGCACAGCCAAUCUUGCCAUGACAAGA
.(((....))).........(((((((((((.......)))))((((((....((((((....(....)....))))))..)))))).....))))))......(((((......))))) ( -31.80)
>sy_ha.0 22419 120 + 2685015/21-141
CUCCUACGGGACUCGAACCCGUGUUACCGCCGUGAAAGGGCGGUGUCUUAACCGCUUGACCAAGGAGCCGUUCUUAAGCACAAGAUAGAUUAUAGCACAGGCUUUAUUUUGAAGACAAGA
....((((((.......))))))..((((((.......))))))(((((....((((((....(....)....)))))).((((((((.....(((....)))))))))))))))).... ( -35.50)
>sy_sa.0 24937 119 + 2516575/21-141
CUCCUACGGGACUCGAACCCGUGUUACCGCCGUGAAAGGGCGGUGUCUUAACCGCUUGACCAAGGAGCCUGUCUUAAGCACAAAAUAAAUUAUAUCAACUCUUAUACCG-GAUGACAAGC
....((((((.......))))))..((((((.......))))))(((....((((((((...((....))...))))))...........((((........))))..)-)..))).... ( -30.20)
>sp_ag.0 3148 115 - 2160267/21-141
UCCGUACGGGAUUCGAACCCGUGUUACCGCCGUGAAAAGGCGGUGUCUUAACCCCUUGACCAACGGACCAU-----AGGUUAGGUGUUUCCUUAGUACUCUUAAUAUUAUAUCAGAAAAA
((((((((((.......)))))..(((((((.......))))))).................)))))....-----..((((((.((.........)).))))))............... ( -29.00)
>sp_mu.0 4529 110 - 2030921/21-141
UCCGUACGGGAUUCGAACCCGUGUUACCGCCGUGAAAAGGCGGUGUCUUAACCCCUUGACCAACGGACCA----------UAGAUGUCUCAUCAACACUCUUAUUAUUAUAACAAAUAUC
((((((((((.......)))))..(((((((.......))))))).................)))))...----------..((((...))))........................... ( -27.00)
>sp_pn.0 181577 109 - 2038615/21-141
UCCGUACGGGAUUCGAACCCGUGUUACCGCCGUGAAAAGGCGGUGUCUUAACCCCUUGACCAACGGACC-----------UGAGUUGUUAUUUUCAACUCUUACUAUUAUACAGCCUUUU
((((((((((.......)))))..(((((((.......))))))).................)))))..-----------.((((((.......)))))).................... ( -31.70)
>consensus
CCCCUACGGGACUCGAACCCGUGUUACCGCCGUGAAAAGGCGGUGUCUUAACCCCUUGACCAACGAACCAU_____AGCACAAGAUAGAUUAUAGCACUCUUAAUAUUAUAAAGACAAGA
((((((((((.......)))))..(((((((.......))))))).................)))))..................................................... (-26.40 = -24.90 +  -1.50) 
# Strand winner: reverse (0.63)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz $RNAz::rnazVersion) on Thu Apr 6 18:50:14 2006