Locus 703

Sequence ID	2L_DroMel_CAF1
Location	2,023,766 – 2,023,911
Length	145
Max. P	0.918767

overview

Window 0

Location	2,023,766 – 2,023,877
Length	111
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	78.70
Mean single sequence MFE	-30.55
Consensus MFE	-17.84
Energy contribution	-18.23
Covariance contribution	0.39
Combinations/Pair	1.09
Mean z-score	-2.26
Structure conservation index	0.58
SVM decision value	1.12
SVM RNA-class probability	0.918767
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2023766 111 + 22407834
UCCCUAUCCAUUAAGCACUGUACUCCUCGCUGGGGACAUUAAAUUUUCUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUUUGCAAACAUUUGCCCAGCA
............................((((((.....(((((.((...((...(((((((((((((((....)))))))..---)))).)))).)).)).))))))))))). ( -30.30)
>DroSec_CAF1 41131 95 + 1
AUUCUAGCCAUUAAGCACUGUACU----------------GUAUUUUCUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUCUGCAAACAUUUGCCCAGCA
......((((..(((.((......----------------)).)))..)))).....(.(((((((((((....)))))))..---)))))(((..((((....))))..))). ( -26.20)
>DroSim_CAF1 39647 111 + 1
ACCCUAUCCAUUGAGCACUGUACUCCUCGCUGGGGACAUUAAAUUUUCUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUCUGCAAACAUUUGCCCAGCA
............(((.......)))...(((((((((.............((.....))(((((((((((....)))))))..---)))).)))).((((....))))))))). ( -31.10)
>DroEre_CAF1 39793 111 + 1
UCCUUAGCCAUUAAGCACUGUACCCUUCGCCGGGGACAUUCCAUUUACUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUCUGCAAACAUUUGCCCAGCA
..((((((((.((((...(((.((((.....))))))).....)))).))))..)))).(((((((((((....)))))))..---)))).(((..((((....))))..))). ( -31.80)
>DroYak_CAF1 43100 111 + 1
UCCUUAAGCAUUAAGCACUGUACUCUGCGCCGGGCACAUAACAUUUUCUGGCCUUAAGCAGUCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUCGGCAAACAUUUGCCCAGCA
..((((((......(((........)))((((((............)))))))))))).(((((((((((....)))))))..---)))).(((.(((((....))))).))). ( -32.80)
>DroPer_CAF1 51335 95 + 1
AGAGUAGGCACAAA-------------------GUACACUCAUAUUUCAGGCCUAAAGCAGCCCUUGGCUAAUAGGCCAACUUUUGUGCUCACUCUGCAAACAUUUGCCCAGCA
(((((..(((((((-------------------(......)........((((((....((((...))))..))))))....)))))))..)))))((((....))))...... ( -31.10)
>consensus
ACCCUAGCCAUUAAGCACUGUACUC_UCGC_GGGGACAUUAAAUUUUCUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU___GGCUCGUUCUGCAAACAUUUGCCCAGCA
...............................................((((.....((((((((((((((....))))))).....)))).)))..((((....)))))))).. (-17.84 = -18.23 +   0.39)

alignment

secondary structure

dotplot

Window 1

Location	2,023,803 – 2,023,911
Length	108
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	86.61
Mean single sequence MFE	-37.57
Consensus MFE	-26.75
Energy contribution	-27.53
Covariance contribution	0.78
Combinations/Pair	1.15
Mean z-score	-2.95
Structure conservation index	0.71
SVM decision value	0.02
SVM RNA-class probability	0.546167
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2023803 108 + 22407834
AUUAAAUUUUCUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUUUGCAAACAUUUGCCCAGCACUUUGGCGGCGCUUCGCCUGGGCCAACCUGCCAU
...........((((((.....((((...))))...)))))).(((---((((((((..((((....))))..))).....(((((....))))).))))))))....... ( -37.80)
>DroSec_CAF1 41155 105 + 1
---GUAUUUUCUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUCUGCAAACAUUUGCCCAGCACUUUGGCGGCGCUUUGCCUUGGCCAACCUGCCAU
---........(((((....(((((((((((((....)))))))..---)))).(((..((((....))))..)))......))(((.....)))..)))))......... ( -34.00)
>DroSim_CAF1 39684 108 + 1
AUUAAAUUUUCUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUCUGCAAACAUUUGCCCAGCACUUUGGCGGCGUUUCGCCUGGGCCAACCUGCCAU
...........((((((.....((((...))))...)))))).(((---((((((((..((((....))))..))).....(((((....))))).))))))))....... ( -37.80)
>DroEre_CAF1 39830 107 + 1
AUUCCAUUUACUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUCUGCAAACAUUUGCCCAGCACUUUGGCGGCGCUUUG-CUGGGCCAACCCGCCAU
...........((((....((((((((((((((....)))))))..---)))).)))............((((((((....(((...))).))-))))))......)))). ( -37.90)
>DroYak_CAF1 43137 108 + 1
AUAACAUUUUCUGGCCUUAAGCAGUCCUUGGCUAAUAGGCCAAGUU---GGCUCGUUCGGCAAACAUUUGCCCAGCACUUUGCCGGCGCUCCGCCUGGGCCAACCUGCCAU
...........((((((..(((........)))...)))))).(((---((((((((.(((((....))))).)))........((((...)))).))))))))....... ( -39.80)
>DroPer_CAF1 51353 106 + 1
ACUCAUAUUUCAGGCCUAAAGCAGCCCUUGGCUAAUAGGCCAACUUUUGUGCUCACUCUGCAAACAUUUGCCCAGCACUUUGG----GCCAGGCCUCGGCUGCUCUGCCA-
............(((....(((((((...((((....((((.......(((((......((((....))))..)))))....)----))).))))..)))))))..))).- ( -38.10)
>consensus
AUUAAAUUUUCUGGCCUUAAGCAGCCCUUGGCUAAUAGGCCAAGUU___GGCUCGUUCUGCAAACAUUUGCCCAGCACUUUGGCGGCGCUUCGCCUGGGCCAACCUGCCAU
...........(((((....(((((((((((((....))))))).....))))......((((....))))...)).....(((((....)))))..)))))......... (-26.75 = -27.53 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:21 2006