Locus 2276

Sequence ID 2L_DroMel_CAF1
Location 6,170,478 – 6,170,619
Length 141
Max. P 0.958866
window3655 window3656

overview

Window 5

Location 6,170,478 – 6,170,579
Length 101
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 92.70
Mean single sequence MFE -24.53
Consensus MFE -22.50
Energy contribution -22.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.63
Structure conservation index 0.92
SVM decision value 1.49
SVM RNA-class probability 0.958866
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6170478 101 - 22407834
GCAUUGUGUGUGCACACACACA----CAUACACUCUCUUACCGACAACGACAGCUUGUUGUCACAUUUACAAUAUCCUUCAGAGUUUAUUCAAGCACACAGAGAG
....((((((((....))))))----))....((((((....((((((((....)))))))).....................((((....))))....)))))) ( -27.40)
>DroSec_CAF1 6758 103 - 1
GCAUUGUGUGUGCACA--CACACUACGAUAUACACACUUACCGACAACGACAGCUUGUUGUCAAAUUUACAAUAUCCUUCAGAGUUUAUUCAAGCACACAGAGAG
...((.(((((((...--........................((((((((....))))))))........((((..((....))..))))...))))))).)).. ( -22.50)
>DroSim_CAF1 16153 105 - 1
GCAUUGUGUGUGCACACACACACUGCCAUAUACACACUUACCGACAACGACAGCUUGUUGUCACAUUUACAAUAUCCUUCAGAGUUUAUUCAAGCACACAGAGAG
(((.(((((((....))))))).)))..........(((...((((((((....)))))))).....................((((....)))).....))).. ( -23.70)
>consensus
GCAUUGUGUGUGCACACACACACU_CCAUAUACACACUUACCGACAACGACAGCUUGUUGUCACAUUUACAAUAUCCUUCAGAGUUUAUUCAAGCACACAGAGAG
...((.(((((((.............................((((((((....))))))))........((((..((....))..))))...))))))).)).. (-22.50 = -22.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 6,170,517 – 6,170,619
Length 102
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 92.14
Mean single sequence MFE -29.23
Consensus MFE -23.32
Energy contribution -23.10
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -3.17
Structure conservation index 0.80
SVM decision value 0.89
SVM RNA-class probability 0.875612
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6170517 102 - 22407834
AAAGUCCACUUGAUGUGACGUCCAGAGAUACAUUUGUAUCGCAUUGUGUGUGCACACACACA----CAUACACUCUCUUACCGACAACGACAGCUUGUUGUCACAU
............((((((((((..(.(((((....))))).)..((((((((....))))))----))..............)))(((((....)))))))))))) ( -29.10)
>DroSec_CAF1 6797 104 - 1
AAAGCCCACUUGAUGUGACGUCCAGAGAUACAUUUGUAUCGCAUUGUGUGUGCACA--CACACUACGAUAUACACACUUACCGACAACGACAGCUUGUUGUCAAAU
...((.(((.....))).........(((((....)))))))((((((((((....--))))).))))).............((((((((....)))))))).... ( -27.00)
>DroSim_CAF1 16192 106 - 1
AAAGCCCACUUGAUGUGACGUCCAGAGAUACAUUUGUAUCGCAUUGUGUGUGCACACACACACUGCCAUAUACACACUUACCGACAACGACAGCUUGUUGUCACAU
............((((((((((....(((((....)))))(((.(((((((....))))))).)))................)))(((((....)))))))))))) ( -31.60)
>consensus
AAAGCCCACUUGAUGUGACGUCCAGAGAUACAUUUGUAUCGCAUUGUGUGUGCACACACACACU_CCAUAUACACACUUACCGACAACGACAGCUUGUUGUCACAU
...((.(((.((((((((....((((......))))..)))))))).))).)).............................((((((((....)))))))).... (-23.32 = -23.10 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:49 2006