Locus 5950

Sequence ID 3L_DroMel_CAF1
Location 15,934,047 – 15,934,137
Length 90
Max. P 0.939523
window9505 window9506

overview

Window 5

Location 15,934,047 – 15,934,137
Length 90
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 86.92
Mean single sequence MFE -25.62
Consensus MFE -23.09
Energy contribution -22.40
Covariance contribution -0.69
Combinations/Pair 1.24
Mean z-score -1.65
Structure conservation index 0.90
SVM decision value 0.69
SVM RNA-class probability 0.823720
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15934047 90 + 23771897
GCAUCUGGUGUGCUCGUUUCCAUUGGAGACGACUUGAUUGUUCGCUUCGUUGUAUUAUGGAUUACAGAUUACAACGCGGCGAUAAGAUA------A
((((.....))))((((((((...))))))))....(((..(((((.(((((((...((.....))...))))))).)))))...))).------. ( -30.20)
>DroSec_CAF1 35856 90 + 1
GCAUCUGGUGUGCUCGAUUCCAUUGGAGACGGCUUGAUUGUUCGCUUCGUUGUAUUAUGGAUUACAGAUUACAACGCGGCGAUAAGAUA------A
..((((.....((.((.((((...)))).))))........(((((.(((((((...((.....))...))))))).)))))..)))).------. ( -25.90)
>DroEre_CAF1 33445 90 + 1
GCAUCUGGUGUACUCGAUUCCAUUGGAGACGACUUGAUUGUUCGCCUCAUUGUAUUAUGGAUUACAGAUUGCAACGCGGCGAUAAGAUA------A
(((((.(((((.(((.(......).))))).))).)).)))(((((.(.(((((...((.....))...))))).).))))).......------. ( -21.90)
>DroAna_CAF1 440 93 + 1
GCAUCUGGUGUGCUCGAUUCCAUUGGAAACGAUUUAAUUGUUCGCUCCAUUGUA---CGGAUUACAGAUUACAAUGAAGCGAUAAGAUAUGAGAAG
...(((.((((.(((((((..((((....))))..))))).(((((.(((((((---............))))))).)))))..)))))).))).. ( -24.50)
>consensus
GCAUCUGGUGUGCUCGAUUCCAUUGGAGACGACUUGAUUGUUCGCUUCAUUGUAUUAUGGAUUACAGAUUACAACGCGGCGAUAAGAUA______A
..((((.......(((.((((...)))).))).........(((((.(((((((...((.....))...))))))).)))))..))))........ (-23.09 = -22.40 +  -0.69)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 15,934,047 – 15,934,137
Length 90
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 86.92
Mean single sequence MFE -21.60
Consensus MFE -17.75
Energy contribution -18.00
Covariance contribution 0.25
Combinations/Pair 1.16
Mean z-score -2.19
Structure conservation index 0.82
SVM decision value 1.30
SVM RNA-class probability 0.939523
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15934047 90 - 23771897
U------UAUCUUAUCGCCGCGUUGUAAUCUGUAAUCCAUAAUACAACGAAGCGAACAAUCAAGUCGUCUCCAAUGGAAACGAGCACACCAGAUGC
.------(((((..((((..(((((((.(.((.....)).).)))))))..)))).........((((.(((...))).)))).......))))). ( -21.20)
>DroSec_CAF1 35856 90 - 1
U------UAUCUUAUCGCCGCGUUGUAAUCUGUAAUCCAUAAUACAACGAAGCGAACAAUCAAGCCGUCUCCAAUGGAAUCGAGCACACCAGAUGC
.------(((((..((((..(((((((.(.((.....)).).)))))))..))))........((((..(((...)))..)).)).....))))). ( -21.60)
>DroEre_CAF1 33445 90 - 1
U------UAUCUUAUCGCCGCGUUGCAAUCUGUAAUCCAUAAUACAAUGAGGCGAACAAUCAAGUCGUCUCCAAUGGAAUCGAGUACACCAGAUGC
.------(((((..(((((.(((((.....((.....)).....))))).))))).......(.(((..(((...)))..))).).....))))). ( -19.10)
>DroAna_CAF1 440 93 - 1
CUUCUCAUAUCUUAUCGCUUCAUUGUAAUCUGUAAUCCG---UACAAUGGAGCGAACAAUUAAAUCGUUUCCAAUGGAAUCGAGCACACCAGAUGC
.......(((((..(((((((((((((............---))))))))))))).........(((.((((...)))).))).......))))). ( -24.50)
>consensus
U______UAUCUUAUCGCCGCGUUGUAAUCUGUAAUCCAUAAUACAACGAAGCGAACAAUCAAGUCGUCUCCAAUGGAAUCGAGCACACCAGAUGC
.......(((((..(((((.(((((((...((.....))...))))))).))))).........(((..(((...)))..))).......))))). (-17.75 = -18.00 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:58 2006