Locus 6413

Sequence ID	3L_DroMel_CAF1
Location	17,184,439 – 17,184,543
Length	104
Max. P	0.689949

overview

Window 0

Location	17,184,439 – 17,184,543
Length	104
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	81.53
Mean single sequence MFE	-27.30
Consensus MFE	-18.64
Energy contribution	-19.87
Covariance contribution	1.22
Combinations/Pair	1.09
Mean z-score	-1.37
Structure conservation index	0.68
SVM decision value	0.01
SVM RNA-class probability	0.537011
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17184439 104 + 23771897
AGUCCGACCUGUCUAAAGCAG---CC-CUAACUAU-GCCGUUAGACCCUGUACGUUAUGCGCUAGAGCCGAGCGCAUGUUUAUAGACGCCCUAGAUUAGGUCUUUGUCA
.....((((((((((..((..---..-(((((...-...)))))...(((((...((((((((.......))))))))..)))))..))..)))).))))))....... ( -33.20)
>DroVir_CAF1 82765 92 + 1
--GCCGACCUGUCUAAGGCAGGCACC-CAAACUAUUGCAGUUAGACU--------------UUAGAAACCGGCGCAUGUUUAUAGACGCCCUAGAUUAGGUCUUUGUCA
--...((((((((((.(((..((.((-....(((..(........).--------------.))).....)).))..(((....)))))).)))).))))))....... ( -23.80)
>DroPse_CAF1 72281 99 + 1
UCGUCGACCUGUCUAAAGCAG---CCUCUAACUAU-GCUGUUAGACCCCGCCC-CCACGCC-----CCCAUGCGCAUGUUUAUAGACGCCCUAGAUUAGGUCUUUGUCA
.....((((((((((..((.(---(.((((((...-...))))))........-....((.-----.....))))..(((....)))))..)))).))))))....... ( -23.30)
>DroEre_CAF1 71004 104 + 1
AGUCCGACCUGUCUAAAGCAG---CC-CUAACUAU-GCCGUUAGACCCUGUACGUUAUGCGCUAGACCCAAGCGCAUGUUUAUAGACGCCCUAGAUUAGGUCUUUGUCA
.....((((((((((..((..---..-(((((...-...)))))...(((((...((((((((.......))))))))..)))))..))..)))).))))))....... ( -33.10)
>DroYak_CAF1 72370 104 + 1
AGUCGGACCUGUCUAAAGCAG---CC-CUAACUAU-GCCGUUAGACCCAGUACGUUAUGCGCUAGACCCAAGCGCAUGUUUAUAGACGCCCUAGAUUAGGUCUUUGUCA
....(((((((((((..((..---..-(((((...-...))))).....((....((((((((.......)))))))).......))))..)))).)))))))...... ( -29.80)
>DroAna_CAF1 50733 90 + 1
AGUCCGACCUGUCUAAAGCAG---CC-CUAACUAU-GCCGUUAGAC--------------GUUAGAACCGAGCGCAUGUUUAUAGACGCCCUAGAUUAGGUCUUUGUCA
.....((((((((((..((.(---(.-(((((...-...)))))..--------------(((.......)))))..(((....)))))..)))).))))))....... ( -20.60)
>consensus
AGUCCGACCUGUCUAAAGCAG___CC_CUAACUAU_GCCGUUAGACCC_GUAC_UUAUGCGCUAGACCCAAGCGCAUGUUUAUAGACGCCCUAGAUUAGGUCUUUGUCA
.....((((((((((..((........(((((.......)))))..............(((((.......)))))............))..)))).))))))....... (-18.64 = -19.87 +   1.22)

alignment

secondary structure

dotplot

Window 1

Location	17,184,439 – 17,184,543
Length	104
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	81.53
Mean single sequence MFE	-33.65
Consensus MFE	-19.32
Energy contribution	-19.35
Covariance contribution	0.03
Combinations/Pair	1.04
Mean z-score	-2.27
Structure conservation index	0.57
SVM decision value	0.33
SVM RNA-class probability	0.689949
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17184439 104 - 23771897
UGACAAAGACCUAAUCUAGGGCGUCUAUAAACAUGCGCUCGGCUCUAGCGCAUAACGUACAGGGUCUAACGGC-AUAGUUAG-GG---CUGCUUUAGACAGGUCGGACU
.......(((((..((((((((..........(((((((.......)))))))........((.((((((...-...)))))-).---)))))))))).)))))..... ( -35.10)
>DroVir_CAF1 82765 92 - 1
UGACAAAGACCUAAUCUAGGGCGUCUAUAAACAUGCGCCGGUUUCUAA--------------AGUCUAACUGCAAUAGUUUG-GGUGCCUGCCUUAGACAGGUCGGC--
.......(((((..((((((((((......))..(((((.(...(((.--------------.((......))..)))..).-)))))..)))))))).)))))...-- ( -28.70)
>DroPse_CAF1 72281 99 - 1
UGACAAAGACCUAAUCUAGGGCGUCUAUAAACAUGCGCAUGGG-----GGCGUGG-GGGCGGGGUCUAACAGC-AUAGUUAGAGG---CUGCUUUAGACAGGUCGACGA
.......(((((..((((((((((((.....(((((.(....)-----.))))).-))))((..((((((...-...))))))..---)))))))))).)))))..... ( -35.50)
>DroEre_CAF1 71004 104 - 1
UGACAAAGACCUAAUCUAGGGCGUCUAUAAACAUGCGCUUGGGUCUAGCGCAUAACGUACAGGGUCUAACGGC-AUAGUUAG-GG---CUGCUUUAGACAGGUCGGACU
.......(((((..((((((((..........(((((((.......)))))))........((.((((((...-...)))))-).---)))))))))).)))))..... ( -35.90)
>DroYak_CAF1 72370 104 - 1
UGACAAAGACCUAAUCUAGGGCGUCUAUAAACAUGCGCUUGGGUCUAGCGCAUAACGUACUGGGUCUAACGGC-AUAGUUAG-GG---CUGCUUUAGACAGGUCCGACU
.......(((((..((((((((((((.(((..((((..((((..((((..(.....)..))))..))))..))-))..))))-))---).)))))))).)))))..... ( -37.40)
>DroAna_CAF1 50733 90 - 1
UGACAAAGACCUAAUCUAGGGCGUCUAUAAACAUGCGCUCGGUUCUAAC--------------GUCUAACGGC-AUAGUUAG-GG---CUGCUUUAGACAGGUCGGACU
.......(((((..((((((((((..........))))))(((((((((--------------(((....)))-...)))))-))---))....)))).)))))..... ( -29.30)
>consensus
UGACAAAGACCUAAUCUAGGGCGUCUAUAAACAUGCGCUUGGGUCUAGCGCAUAA_GUAC_GGGUCUAACGGC_AUAGUUAG_GG___CUGCUUUAGACAGGUCGGACU
.......(((((..((((((((((.(((....))).))...........................(((((.......)))))........)))))))).)))))..... (-19.32 = -19.35 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:49 2006