Locus 1210

Sequence ID	X_DroMel_CAF1
Location	3,591,277 – 3,591,427
Length	150
Max. P	0.992100

overview

Window 5

Location	3,591,277 – 3,591,387
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	88.07
Mean single sequence MFE	-47.87
Consensus MFE	-38.42
Energy contribution	-39.66
Covariance contribution	1.24
Combinations/Pair	1.09
Mean z-score	-2.49
Structure conservation index	0.80
SVM decision value	2.03
SVM RNA-class probability	0.986160
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3591277 110 - 22224390
AAUGGCGCUACGGGCCCGGGUACCAAAAUCCGGAUCCGAGGUCUCCCCGGGCUUCAGCCUGGGUCAAAAAUGGCUCGGAUUGAAGGGUACGAGAAUGGGGUGUCGUCCAC
.((((((((.(((..((((((......))))))..)))...(((((((((((....))))))).........((((........))))..))))....)))))))).... ( -45.60)
>DroSec_CAF1 50252 109 - 1
AAUGGCGCUACGGGCCCGGGUAACAAAAUCCGGAUCCGAGGUCUCCCCGGGC-CCAGCCUGGGUCAAAAAUGGCUCGGAUCGAAGGGGACGAGAAUGGGGUGUCGUCCAC
.((((((((.(((..((((((......))))))..))).)))..((((((((-((.....)))))........((((..((....))..))))..))))).))))).... ( -47.30)
>DroSim_CAF1 37046 110 - 1
AAUGGCGCUACGGGCCCGGGUAACAAAAUCCGGAUCCGAGGUCUCCCCGGGCUCCAGCCUGGGUCAAAAAUGGCUCGGAUCGAAGGGGACGAGAAUGGGGUGUCGUCCAC
...(((.(....))))(((((......)))))((((((((.....(((((((....)))))))(((....))))))))))).....((((((.(......).)))))).. ( -47.70)
>DroEre_CAF1 45374 99 - 1
AAUGGCGCUACGGGCCCGGGUAACAAAAUCCGGAUCCGGGGG---------CUCAGGCCCGGGUCAAAAAUGGCUCGGAACGAAGGGGCCG--AACGGGGUGUCGUCCAC
.(((((((..(((((((((((.......((((....))))..---------.....))))))))).........((((..(....)..)))--).))..))))))).... ( -46.94)
>DroYak_CAF1 46545 108 - 1
AAUGGCGCUACGAGCCCGGGUAACAAAAUCCGGAUCCGGGGGCUCCUCGGGCUCAAGCCCGGGUCAAAAAUGGCUCGGAUCGAAAGGGCCA--AACGGGGUGCCGUCCAC
.(((((((..(((((((((((......)))))(((((((((...))))((((....)))))))))......)))))((..(....)..)).--...)..))))))).... ( -51.80)
>consensus
AAUGGCGCUACGGGCCCGGGUAACAAAAUCCGGAUCCGAGGUCUCCCCGGGCUCCAGCCUGGGUCAAAAAUGGCUCGGAUCGAAGGGGACGAGAAUGGGGUGUCGUCCAC
.((((((((.(((..((((((......))))))..)))..((((((..((((....))))((((((....))))))........))))))........)))))))).... (-38.42 = -39.66 +   1.24)

alignment

secondary structure

dotplot

Window 6

Location	3,591,307 – 3,591,427
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.75
Mean single sequence MFE	-38.14
Consensus MFE	-31.48
Energy contribution	-32.64
Covariance contribution	1.16
Combinations/Pair	1.08
Mean z-score	-2.38
Structure conservation index	0.83
SVM decision value	2.31
SVM RNA-class probability	0.992100
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3591307 120 - 22224390
AAUCGUCAAAUACACAAAAUCCACUUUGCAAAUCAUCAGAAAUGGCGCUACGGGCCCGGGUACCAAAAUCCGGAUCCGAGGUCUCCCCGGGCUUCAGCCUGGGUCAAAAAUGGCUCGGAU
..................((((.............(((....))).(((((((..((((((......))))))..))).......(((((((....))))))).......))))..)))) ( -38.80)
>DroSec_CAF1 50282 119 - 1
AAUCGUCAAAUACACAAAAUCCACUUUGCAAAUCAUCAGAAAUGGCGCUACGGGCCCGGGUAACAAAAUCCGGAUCCGAGGUCUCCCCGGGC-CCAGCCUGGGUCAAAAAUGGCUCGGAU
....((((......((((......))))....((....))..))))(((..(((((((((.......(((((....)).)))...)))))))-)))))((((((((....)))))))).. ( -38.00)
>DroSim_CAF1 37076 120 - 1
AAUCGUCAAAUACACAAAAUCCACUUUGCAAAUCAUCAGAAAUGGCGCUACGGGCCCGGGUAACAAAAUCCGGAUCCGAGGUCUCCCCGGGCUCCAGCCUGGGUCAAAAAUGGCUCGGAU
..................((((.............(((....))).(((((((..((((((......))))))..))).......(((((((....))))))).......))))..)))) ( -38.80)
>DroEre_CAF1 45402 111 - 1
AAUCGUCAAAUACACAAAAUCCACUUUGCAAAUCAUCAGAAAUGGCGCUACGGGCCCGGGUAACAAAAUCCGGAUCCGGGGG---------CUCAGGCCCGGGUCAAAAAUGGCUCGGAA
....(((............................(((....))).(((.(((..((((((......))))))..)))..))---------)...)))((((((((....)))))))).. ( -35.40)
>DroYak_CAF1 46573 120 - 1
AAUCGUCAAAUACACAAAAUCCACUUUGCAAAUCAUCAGAAAUGGCGCUACGAGCCCGGGUAACAAAAUCCGGAUCCGGGGGCUCCUCGGGCUCAAGCCCGGGUCAAAAAUGGCUCGGAU
...(((((......((((......))))....((....))..)))))...(((((((((((......)))))(((((((((...))))((((....)))))))))......))))))... ( -39.70)
>consensus
AAUCGUCAAAUACACAAAAUCCACUUUGCAAAUCAUCAGAAAUGGCGCUACGGGCCCGGGUAACAAAAUCCGGAUCCGAGGUCUCCCCGGGCUCCAGCCUGGGUCAAAAAUGGCUCGGAU
...................(((.............(((....))).(((((((..((((((......))))))..))).......(((((((....))))))).......))))..))). (-31.48 = -32.64 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:01 2006