Locus 7243

Sequence ID	X_DroMel_CAF1
Location	18,084,918 – 18,085,036
Length	118
Max. P	0.999172

overview

Window 3

Location	18,084,918 – 18,085,036
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.25
Mean single sequence MFE	-27.28
Consensus MFE	-23.57
Energy contribution	-23.29
Covariance contribution	-0.28
Combinations/Pair	1.07
Mean z-score	-2.68
Structure conservation index	0.86
SVM decision value	3.41
SVM RNA-class probability	0.999172
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18084918 118 + 22224390
CAAUCUACCCUGUAGAUGGCCUCAAAUCGAGGGUAUAUAAACACUAUCGGGUCGCCUAAUUACUGCCCAUAAACACACAAAUUAUAUCUUUGAUUUGUGCCCAUUAAUCAUUUGAUAC--
..((((((...))))))(((..(((((((((((((((...........((((.(........).))))..............))))))))))))))).))).(((((....)))))..-- ( -28.41)
>DroSec_CAF1 7356 120 + 1
CAGUCUACCCUGUAGAUGGCCUCAAAUAGAGGGUAUAUAAACACUAUCGGGUCGCAUAAUUACUGCCCAUAAACACACAAAUUAUAUCUUUGAUUCGUGCCCAUUAAUCAUUUGAGACUC
..((((((...))))))((.(((((((.((((((((............((((.(........).)))).........((((.......))))....)))))).....))))))))).)). ( -24.20)
>DroSim_CAF1 7132 120 + 1
CAGUCUACCCUGUAGAUGGCCUCAAAUCGAGGGUAUAUAAACACUAUCGGGUCGCAUAAUUACUGCCCAUAAACACACAAAUUAUAUCUUUGAUUCGUGCCCAUUAAUCAUUUGAGACUC
.(((((....((..(((((.(.(.(((((((((((((...........((((.(........).))))..............))))))))))))).).).)))))...))....))))). ( -27.41)
>DroEre_CAF1 4990 119 + 1
CAAUCUACCCUGUAGAUGGCCUCAAAUCAAGGGUAUAUA-ACACUAUCGGGUCGCCUAAUUACUGCCCAUAAGCACACAAAUUAUAUCUUUGAUUCGCGCCCAUUAAUCAUUUGAGACCU
..((((((...))))))((.(((((((....((((....-....))))(((.(((........(((......)))..((((.......))))....)))))).......))))))).)). ( -25.00)
>DroYak_CAF1 5975 120 + 1
CCAUCUACCCUGUAGAUGGCCUCAAAUCAAGGGUAUAUAAACACUAUCGGGUCGCAUAAUCACUGCCCAUAAACACACAAAUUAUAUCUUUGAUUUGUGCCCAUUAAUCAUUUGAGACAU
((((((((...)))))))).(((((((...(((...............((((.(........).)))).......(((((((((......)))))))))))).......))))))).... ( -31.40)
>consensus
CAAUCUACCCUGUAGAUGGCCUCAAAUCGAGGGUAUAUAAACACUAUCGGGUCGCAUAAUUACUGCCCAUAAACACACAAAUUAUAUCUUUGAUUCGUGCCCAUUAAUCAUUUGAGACUC
..((((((...))))))(((..(.(((((((((((((...........((((.(........).))))..............))))))))))))).).)))................... (-23.57 = -23.29 +  -0.28)

alignment

secondary structure

dotplot

Window 4

Location	18,084,918 – 18,085,036
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.25
Mean single sequence MFE	-30.86
Consensus MFE	-28.06
Energy contribution	-27.46
Covariance contribution	-0.60
Combinations/Pair	1.11
Mean z-score	-1.28
Structure conservation index	0.91
SVM decision value	0.63
SVM RNA-class probability	0.806810
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18084918 118 - 22224390
--GUAUCAAAUGAUUAAUGGGCACAAAUCAAAGAUAUAAUUUGUGUGUUUAUGGGCAGUAAUUAGGCGACCCGAUAGUGUUUAUAUACCCUCGAUUUGAGGCCAUCUACAGGGUAGAUUG
--.((((...((.(..((((.(.((((((..(((((((.....)))))))..(((..((......))..)))((..((((....))))..)))))))).).))))..))).))))..... ( -26.00)
>DroSec_CAF1 7356 120 - 1
GAGUCUCAAAUGAUUAAUGGGCACGAAUCAAAGAUAUAAUUUGUGUGUUUAUGGGCAGUAAUUAUGCGACCCGAUAGUGUUUAUAUACCCUCUAUUUGAGGCCAUCUACAGGGUAGACUG
.((((...........((((((((..(((..(((((((.....)))))))..(((..(((....)))..)))))).)))))))).((((((.((..((....))..)).)))))))))). ( -31.40)
>DroSim_CAF1 7132 120 - 1
GAGUCUCAAAUGAUUAAUGGGCACGAAUCAAAGAUAUAAUUUGUGUGUUUAUGGGCAGUAAUUAUGCGACCCGAUAGUGUUUAUAUACCCUCGAUUUGAGGCCAUCUACAGGGUAGACUG
(.(((((((((((...((((((((..(((..(((((((.....)))))))..(((..(((....)))..)))))).))))))))......)).)))))))))).(((((...)))))... ( -30.50)
>DroEre_CAF1 4990 119 - 1
AGGUCUCAAAUGAUUAAUGGGCGCGAAUCAAAGAUAUAAUUUGUGUGCUUAUGGGCAGUAAUUAGGCGACCCGAUAGUGU-UAUAUACCCUUGAUUUGAGGCCAUCUACAGGGUAGAUUG
.((((((((((.(...(((((((((...((((.......)))))))))))))(((..((......))..)))........-..........).))))))))))((((((...)))))).. ( -33.80)
>DroYak_CAF1 5975 120 - 1
AUGUCUCAAAUGAUUAAUGGGCACAAAUCAAAGAUAUAAUUUGUGUGUUUAUGGGCAGUGAUUAUGCGACCCGAUAGUGUUUAUAUACCCUUGAUUUGAGGCCAUCUACAGGGUAGAUGG
..(((((((((.(...((((((((..(((..(((((((.....)))))))..(((..((......))..)))))).)))))))).......).)))))))))(((((((...))))))). ( -32.60)
>consensus
AAGUCUCAAAUGAUUAAUGGGCACGAAUCAAAGAUAUAAUUUGUGUGUUUAUGGGCAGUAAUUAUGCGACCCGAUAGUGUUUAUAUACCCUCGAUUUGAGGCCAUCUACAGGGUAGAUUG
..(((((((((.....(((((((((...((((.......)))))))))))))(((..((......))..)))((..((((....))))..)).)))))))))..(((((...)))))... (-28.06 = -27.46 +  -0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:57 2006