Locus 5067

Sequence ID	2R_DroMel_CAF1
Location	16,453,519 – 16,453,649
Length	130
Max. P	0.951932

overview

Window 9

Location	16,453,519 – 16,453,631
Length	112
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	82.91
Mean single sequence MFE	-43.42
Consensus MFE	-30.51
Energy contribution	-31.43
Covariance contribution	0.92
Combinations/Pair	1.17
Mean z-score	-2.14
Structure conservation index	0.70
SVM decision value	0.40
SVM RNA-class probability	0.719853
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16453519 112 + 20766785
GUUGCAGUUGCCUAGCACCAACACUAGCACCACCCGGUCUACUCACCUGUCUCCUGCUCAUCUGGUCCUGCUAUUUGUGGUGGUUCUGGGUGUGUGGGCGGCUGGUG-CUCCA
((((..((......))..))))...(((((((...(((......))).(((.((..(.((((..(..(..(((....)))..)..)..)))).)..)).))))))))-))... ( -40.70)
>DroSec_CAF1 129009 112 + 1
GUUGCAGUUGCCUAGCACCAACACUAGCACCACCCGGUCUAGUCACCUGUCUCCUGCUCAUCUGGUCCUACUAUUCGUGGUGGUUCUGGGUCUGUGGGCGGCGGGUG-CUCCA
((((..((......))..))))(((((.(((....))))))))((((((((.((..(..(((..(..((((((....))))))..)..)))..)..)).))))))))-..... ( -43.80)
>DroSim_CAF1 125716 112 + 1
GUUGCAGUUGCCUAGCACCAACACUAGCACCACCCGGUCUAGUCACCUGUCUCCUGCUCAUCUGGUCCUACUAUUCGUGGUGGUUCUGGGUCUGUGGGCGGCGGGUG-CUCCA
((((..((......))..))))(((((.(((....))))))))((((((((.((..(..(((..(..((((((....))))))..)..)))..)..)).))))))))-..... ( -43.80)
>DroEre_CAF1 129159 112 + 1
GUUGCAGUUGCCUAGCACCACCACUAGCACCACCCGGUCUAGUCACCUGCCUCCUGCUCAUCUGGUCCUGCUAUUCGUGGUGGUUCUGGGUUUGUGGGCGGCUGGUG-CUCCA
...((....))..(((((((..(((((.(((....)))))))).....(((.((..(..(((..(..(..(((....)))..)..)..)))..)..)).))))))))-))... ( -43.20)
>DroYak_CAF1 130434 113 + 1
GUUGCUGUUGCCUAGCACCACCACUAGCACCAACCGGUCUAGUCACCUGUCUCCUGCUCAUCUGGUCCUGCUACUCGUGGUGGUACUGGGUGUGUGGGUGGCUGGUGGCUUCA
..(((((.....)))))((((((((((.(((....)))))))).....(((.((..(.((((..((.(..(((....)))..).))..)))).)..)).))).)))))..... ( -47.20)
>DroAna_CAF1 125529 91 + 1
GUUGCA------UAG------------CAACACCAGCCCCUGUGGCCUGUCUCUUCCUUACCUGGCUCUGCUUUU---GGUGGUGCUGGGUCUGGGCGGGGCAGGUG-CACCA
(((((.------..)------------))))..........((((((((((((.(((..(((..((.(..(....---.)..).))..)))..))).))))))))).-))).. ( -41.80)
>consensus
GUUGCAGUUGCCUAGCACCAACACUAGCACCACCCGGUCUAGUCACCUGUCUCCUGCUCAUCUGGUCCUGCUAUUCGUGGUGGUUCUGGGUCUGUGGGCGGCUGGUG_CUCCA
......................(((((.(((....))))))))((((.(((.(((((..(((..(..((((((....))))))..)..)))..))))).))).))))...... (-30.51 = -31.43 +   0.92)

alignment

secondary structure

dotplot

Window 0

Location	16,453,556 – 16,453,649
Length	93
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	78.55
Mean single sequence MFE	-34.87
Consensus MFE	-23.45
Energy contribution	-23.82
Covariance contribution	0.37
Combinations/Pair	1.27
Mean z-score	-2.22
Structure conservation index	0.67
SVM decision value	1.42
SVM RNA-class probability	0.951932
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16453556 93 + 20766785
UCUACUCACCUGUCUCCUGCUCAUCUGGUCCUGCUAUUUGUGGUGGUUCUGGGUGUGUGGGCGGCUGGUG-CUCCACCGGCAAAAA------CAACAAA----C
.............(.((..(.((((..(..(..(((....)))..)..)..)))).)..)).)(((((((-...))))))).....------.......----. ( -32.30)
>DroSec_CAF1 129046 93 + 1
UCUAGUCACCUGUCUCCUGCUCAUCUGGUCCUACUAUUCGUGGUGGUUCUGGGUCUGUGGGCGGCGGGUG-CUCCACCGGCAAAAA------CAACAAA----C
...((.((((((((.((..(..(((..(..((((((....))))))..)..)))..)..)).))))))))-)).............------.......----. ( -34.30)
>DroSim_CAF1 125753 93 + 1
UCUAGUCACCUGUCUCCUGCUCAUCUGGUCCUACUAUUCGUGGUGGUUCUGGGUCUGUGGGCGGCGGGUG-CUCCACCGGCAAAAA------CAACAAA----C
...((.((((((((.((..(..(((..(..((((((....))))))..)..)))..)..)).))))))))-)).............------.......----. ( -34.30)
>DroEre_CAF1 129196 93 + 1
UCUAGUCACCUGCCUCCUGCUCAUCUGGUCCUGCUAUUCGUGGUGGUUCUGGGUUUGUGGGCGGCUGGUG-CUCCACCGGCAAAAA------CAACAAA----C
...((.((((.(((.((..(..(((..(..(..(((....)))..)..)..)))..)..)).))).))))-)).............------.......----. ( -32.20)
>DroYak_CAF1 130471 104 + 1
UCUAGUCACCUGUCUCCUGCUCAUCUGGUCCUGCUACUCGUGGUGGUACUGGGUGUGUGGGUGGCUGGUGGCUUCACCGGCAAACAAAAAGAAAACAAAACACC
...(((((((.(((.((..(.((((..((.(..(((....)))..).))..)))).)..)).))).)))))))............................... ( -39.10)
>DroPer_CAF1 162603 90 + 1
CCUCGGCGCCUGCCUCACCAUAGCCUUUG---GCUACUUCUUGUGGUUCUUUGGCUAUGUGGCGCAGGUG-CUACACCACCAACGC------CAUCAGA----G
....(((((((((.((((.((((((...(---(((((.....))))))....)))))))))).)))))))-)).............------.......----. ( -37.00)
>consensus
UCUAGUCACCUGUCUCCUGCUCAUCUGGUCCUGCUAUUCGUGGUGGUUCUGGGUCUGUGGGCGGCUGGUG_CUCCACCGGCAAAAA______CAACAAA____C
......((((.(((.(((((..(((..(..((((((....))))))..)..)))..))))).))).)))).................................. (-23.45 = -23.82 +   0.37)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:40 2006