Locus 6182

Sequence ID	X_DroMel_CAF1
Location	15,772,904 – 15,773,000
Length	96
Max. P	0.926508

overview

Window 5

Location	15,772,904 – 15,773,000
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	82.40
Mean single sequence MFE	-29.68
Consensus MFE	-21.30
Energy contribution	-21.82
Covariance contribution	0.52
Combinations/Pair	1.24
Mean z-score	-2.22
Structure conservation index	0.72
SVM decision value	1.18
SVM RNA-class probability	0.926508
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15772904 96 + 22224390
UAUACUGAUGCUGUGUGUUGUGUCGAUUCGAAUCGACUGAUACUGUGUGCGGGCCAUGAUCUAGCGUACUUAUGCUCUUCAGCACACAGCAGAAGA
....((..((((((((((((.((((((....)))))).....(((....)))..........(((((....)))))...))))))))))))..)). ( -33.70)
>DroSec_CAF1 3456 96 + 1
UAUACUGAUGCUGUGUGUUGUAUCGAUUCGAAUCGACUGAUACUGUGUGCGGGCCAUGAUCUAGCGUACUUAUGCUCUUCAGCACACAGCAGAGGA
....((..((((((((((((..(((((....)))))......(((....)))..........(((((....)))))...))))))))))))..)). ( -30.60)
>DroEre_CAF1 3607 96 + 1
UAUACUGAUGCUGUGUGUUGUAUCGAUUCGAAUCGACGGAUACUGUGUGCGGGCCAUGAUCUAGCGUACUUAUGCUUUUCAGCACACAGCAUAAGA
....((.(((((((((((((..(((((....))))).((...(((....))).)).......(((((....)))))...))))))))))))).)). ( -33.50)
>DroYak_CAF1 3570 96 + 1
UAUACUGAUGCUGUGUGUUGUAUCGAUUCGAAUCGACGGAUACUGUGUGCGGGCCAUGAUCUAGCGUACUUAUGCUCUUCAGCACACAGCAGAAGA
....((..((((((((((((..(((((....))))).((...(((....))).)).......(((((....)))))...))))))))))))..)). ( -33.60)
>DroPer_CAF1 134835 96 + 1
UGAAUUUUUGGUACGUAUUGUAGCGAUUUGAAACGACAGAUACUUUAUGUGCAUCAUCGGUUAAAGUGACAACAUUUUUCCACACAAAGCAAAAUA
.....((((((((((((..(((.((........)).....)))..)))))))......((..((((((....)))))).))........))))).. ( -17.00)
>consensus
UAUACUGAUGCUGUGUGUUGUAUCGAUUCGAAUCGACGGAUACUGUGUGCGGGCCAUGAUCUAGCGUACUUAUGCUCUUCAGCACACAGCAGAAGA
....((..((((((((((((..(((((....)))))........((((((.............))))))..........))))))))))))..)). (-21.30 = -21.82 +   0.52)

alignment

secondary structure

dotplot

Window 6

Location	15,772,904 – 15,773,000
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	82.40
Mean single sequence MFE	-24.40
Consensus MFE	-19.36
Energy contribution	-19.08
Covariance contribution	-0.28
Combinations/Pair	1.23
Mean z-score	-1.75
Structure conservation index	0.79
SVM decision value	0.54
SVM RNA-class probability	0.773731
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15772904 96 - 22224390
UCUUCUGCUGUGUGCUGAAGAGCAUAAGUACGCUAGAUCAUGGCCCGCACACAGUAUCAGUCGAUUCGAAUCGACACAACACACAGCAUCAGUAUA
.((..(((((((((.((..........((..((((.....))))..))...........((((((....)))))).)).)))))))))..)).... ( -27.90)
>DroSec_CAF1 3456 96 - 1
UCCUCUGCUGUGUGCUGAAGAGCAUAAGUACGCUAGAUCAUGGCCCGCACACAGUAUCAGUCGAUUCGAAUCGAUACAACACACAGCAUCAGUAUA
.....(((((((((.((..........((..((((.....))))..))...........((((((....)))))).)).)))))))))........ ( -25.60)
>DroEre_CAF1 3607 96 - 1
UCUUAUGCUGUGUGCUGAAAAGCAUAAGUACGCUAGAUCAUGGCCCGCACACAGUAUCCGUCGAUUCGAAUCGAUACAACACACAGCAUCAGUAUA
.((.((((((((((((....)))....((..((((.....))))..)).....(((((..(((...)))...)))))...))))))))).)).... ( -28.70)
>DroYak_CAF1 3570 96 - 1
UCUUCUGCUGUGUGCUGAAGAGCAUAAGUACGCUAGAUCAUGGCCCGCACACAGUAUCCGUCGAUUCGAAUCGAUACAACACACAGCAUCAGUAUA
.((..(((((((((.((..........((..((((.....))))..))...........((((((....)))))).)).)))))))))..)).... ( -25.70)
>DroPer_CAF1 134835 96 - 1
UAUUUUGCUUUGUGUGGAAAAAUGUUGUCACUUUAACCGAUGAUGCACAUAAAGUAUCUGUCGUUUCAAAUCGCUACAAUACGUACCAAAAAUUCA
.....(((((((((((.(.....((((......))))......).)))))))))))..(((.((........)).))).................. ( -14.10)
>consensus
UCUUCUGCUGUGUGCUGAAGAGCAUAAGUACGCUAGAUCAUGGCCCGCACACAGUAUCAGUCGAUUCGAAUCGAUACAACACACAGCAUCAGUAUA
.....((((((((((......((....))..((((.....))))..))))))))))...((((((....))))))..................... (-19.36 = -19.08 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:40 2006