Locus 6075

Sequence ID	3R_DroMel_CAF1
Location	15,952,006 – 15,952,184
Length	178
Max. P	0.985526

overview

Window 0

Location	15,952,006 – 15,952,114
Length	108
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	86.55
Mean single sequence MFE	-32.48
Consensus MFE	-25.46
Energy contribution	-25.26
Covariance contribution	-0.20
Combinations/Pair	1.22
Mean z-score	-2.63
Structure conservation index	0.78
SVM decision value	2.01
SVM RNA-class probability	0.985526
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15952006 108 - 27905053
UACUUGGCUAAAAUUUACAUAGGUGGCCGCUGGACU----GGCUAUAUCCAAAUAGCCAAAAUUGCAAAGGAGUAAGGAUAGGGAAAAUAUCCUUACUCUCCAUCGAACGCA
......................(((..((.((((.(----((((((......)))))))...........(((((((((((.......))))))))))))))).))..))). ( -35.30)
>DroSec_CAF1 78424 108 - 1
UUCUUGGCUAAAAUUUACAUAGGUGGCCGGUGGACU----GGCUAUAUCCAAAGAGCCAAAAUUGCAAAGGAGUAAGGAUAGGGAAAAUAUCCUUACUCUCCAUCGAACGCA
......................(((..(((((((.(----((((..........)))))...........(((((((((((.......))))))))))))))))))..))). ( -35.90)
>DroSim_CAF1 53808 108 - 1
UACUUGGCUAAAAUUUACAUAGGUGGCCGGUGGACU----GGCUAUAUCCAAAGAGCCAAAAUUGCAAAGGAGUAAGGAUGGGGAAAAUAUCCUUACUCUCCAUCGAACGCA
......................(((..(((((((.(----((((..........)))))...........(((((((((((.......))))))))))))))))))..))). ( -35.40)
>DroEre_CAF1 53366 108 - 1
UACUUGGCUAAAAUUUACAUAGGUGGCCA---GACUAUGGGGCUAU-UUCGAAGAGCCAAAGUUCCAAAGGAGUAGGGAUAGGAUAAAUUUCCUUACUCUCCGUCGGACGCA
...((((((....(((....((((((((.---........))))))-)).))).)))))).((((....((((((((((...........)))))))))).....))))... ( -30.80)
>DroYak_CAF1 82182 105 - 1
UACUUGGCUAAAAUUUACAUAGGUGGCCA---GACU----GGCUAUAUUCAAAGAGCAAGCGAUUCAAAGGAGCUGGGGUAGGGAAAAUUUCCUUGAUCUCCAUCGGACGCA
......(((....(((......((((((.---....----))))))....))).)))..(((.(((...((((......((((((.....))))))..))))...)))))). ( -25.00)
>consensus
UACUUGGCUAAAAUUUACAUAGGUGGCCG_UGGACU____GGCUAUAUCCAAAGAGCCAAAAUUGCAAAGGAGUAAGGAUAGGGAAAAUAUCCUUACUCUCCAUCGAACGCA
...((((((....(((......((((((............))))))....))).)))))).........((((((((((((.......))))))))))))............ (-25.46 = -25.26 +  -0.20)

alignment

secondary structure

dotplot

Window 1

Location	15,952,079 – 15,952,184
Length	105
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	94.84
Mean single sequence MFE	-25.80
Consensus MFE	-21.40
Energy contribution	-20.96
Covariance contribution	-0.44
Combinations/Pair	1.11
Mean z-score	-1.36
Structure conservation index	0.83
SVM decision value	0.02
SVM RNA-class probability	0.541925
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15952079 105 - 27905053
UUGACUGGGCUUAAUUCAAAUUCAGUUAAGCUUUCAAGUCUGUUUACCAAUAGGAUUCCCCAGCCUAGUAUACUUGGCUAAAAUUUACAUAGGUGGCCGCUGGAC
((((..((((((((((.......))))))))))))))(((((((((((....((.....))((((.((....)).))))............)))))..)).)))) ( -24.50)
>DroSec_CAF1 78497 105 - 1
UUGACUGGGCUUAAUUCAAAUUCAGUUAAGCUUUCAAGUCUGUUUACCAAUAGGAUUCCCCAGCCUAGUAUUCUUGGCUAAAAUUUACAUAGGUGGCCGGUGGAC
..((((.(((((((((.......)))))))))....)))).(((((((..((((.........))))........(((((...((.....)).)))))))))))) ( -26.70)
>DroSim_CAF1 53881 105 - 1
UUGACUGGGCUUAAUUCAAAUUCAGUUAAGCUUUCAAGUCUGUUUACCAAUAGGAUUCCCCAGCCUAGUAUACUUGGCUAAAAUUUACAUAGGUGGCCGGUGGAC
..((((.(((((((((.......)))))))))....)))).(((((((....((.....))((((.((....)).))))...................))))))) ( -26.80)
>DroEre_CAF1 53442 102 - 1
UUGACUGGGCUUAAUUCAAAUUCAGUUAAGCUUUCAAGUCUGUUUACCAAUAGGAUUCCACAGCCUGGUAUACUUGGCUAAAAUUUACAUAGGUGGCCA---GAC
((((..((((((((((.......))))))))))))))(((((..((((....((...))..((((.((....)).))))............))))..))---))) ( -27.70)
>DroYak_CAF1 82255 102 - 1
UUGGCUGGGCCUAAUUCAAAUUCAGUUAAGCUUUCAAGUCUGUUUACCAAUAGGACUCCACAGCCUGGUAUACUUGGCUAAAAUUUACAUAGGUGGCCA---GAC
(((((((((...........)))))))))........(((((..((((....((...))..((((.((....)).))))............))))..))---))) ( -23.30)
>consensus
UUGACUGGGCUUAAUUCAAAUUCAGUUAAGCUUUCAAGUCUGUUUACCAAUAGGAUUCCCCAGCCUAGUAUACUUGGCUAAAAUUUACAUAGGUGGCCG_UGGAC
..((((.(((((((((.......)))))))))....))))((..((((....((...))..((((.((....)).))))............))))..))...... (-21.40 = -20.96 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:05 2006