Locus 1145

Sequence ID 3R_DroMel_CAF1
Location 3,426,591 – 3,426,688
Length 97
Max. P 0.995000
window1881 window1882

overview

Window 1

Location 3,426,591 – 3,426,688
Length 97
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 84.91
Mean single sequence MFE -40.42
Consensus MFE -25.45
Energy contribution -27.57
Covariance contribution 2.12
Combinations/Pair 1.00
Mean z-score -2.51
Structure conservation index 0.63
SVM decision value 0.83
SVM RNA-class probability 0.860621
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3426591 97 + 27905053
UUAUUGCGAUUUUUACACUCCGUUUAUGAGCCAGGACCUGGAGCUCUGUGACCCCGGAACCCUGGGUCCCGGGCUC-------CUGGAACCUGGUCAGGAGAGG
.................((((.....(((.(((((.((.(((((((.(.(((((.((...)).)))))).))))))-------).))..))))))))))))... ( -41.40)
>DroSec_CAF1 24787 97 + 1
UUAUUGCGAUUUUUACACUCCGUUUAUGAGCCAGAACCUGGAGCUCUGGGACCCCGGAGCCCUGGGUCCCGGGCUC-------CUGGAACCUGGUCAGGAGCGG
...................((((((.(((.((((..((.(((((.(((((((((.((...)).)))))))))))))-------).))...))))))).)))))) ( -48.70)
>DroSim_CAF1 39261 97 + 1
UUAUUGCGAUUUUUACACUCCGUUUAUGAGCCAGAACCUGGAGCUGUGGGACCCCGGAGCCCUGGGUCCCGGGCUC-------CUGGAACCUGGUCAGGAGCGG
...................((((((.(((.((((..((.((((((.((((((((.((...)).)))))))))))))-------).))...))))))).)))))) ( -45.90)
>DroEre_CAF1 35452 88 + 1
UUAUUGCGAUUUUUACACUCCGUUUAUGAGCCAGAACCUGGGA----------------CCCUGGGUCCCGAGCUCCUGGAACCUGGAACCUGGUCAGGAGAGG
.................((((.....(((.((((....(((((----------------((...)))))))...(((.(....).)))..)))))))))))... ( -25.70)
>consensus
UUAUUGCGAUUUUUACACUCCGUUUAUGAGCCAGAACCUGGAGCUCUGGGACCCCGGAGCCCUGGGUCCCGGGCUC_______CUGGAACCUGGUCAGGAGAGG
...................((((((.(((.((((.(((..(.(((((((....))))))).)..))).((((...........))))...))))))).)))))) (-25.45 = -27.57 +   2.12) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 3,426,591 – 3,426,688
Length 97
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 84.91
Mean single sequence MFE -39.45
Consensus MFE -31.88
Energy contribution -32.50
Covariance contribution 0.62
Combinations/Pair 1.15
Mean z-score -3.08
Structure conservation index 0.81
SVM decision value 2.53
SVM RNA-class probability 0.995000
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3426591 97 - 27905053
CCUCUCCUGACCAGGUUCCAG-------GAGCCCGGGACCCAGGGUUCCGGGGUCACAGAGCUCCAGGUCCUGGCUCAUAAACGGAGUGUAAAAAUCGCAAUAA
.(.((((((((((((..((.(-------((((((((((((...))))))))(....)...))))).)).))))).))).....)))).)............... ( -38.50)
>DroSec_CAF1 24787 97 - 1
CCGCUCCUGACCAGGUUCCAG-------GAGCCCGGGACCCAGGGCUCCGGGGUCCCAGAGCUCCAGGUUCUGGCUCAUAAACGGAGUGUAAAAAUCGCAAUAA
.((((((((((((((..((.(-------(((((.(((((((.((...)).))))))).).))))).)).))))).))).....))))))............... ( -45.50)
>DroSim_CAF1 39261 97 - 1
CCGCUCCUGACCAGGUUCCAG-------GAGCCCGGGACCCAGGGCUCCGGGGUCCCACAGCUCCAGGUUCUGGCUCAUAAACGGAGUGUAAAAAUCGCAAUAA
.((((((((((((((..((.(-------((((..(((((((.((...)).)))))))...))))).)).))))).))).....))))))............... ( -44.10)
>DroEre_CAF1 35452 88 - 1
CCUCUCCUGACCAGGUUCCAGGUUCCAGGAGCUCGGGACCCAGGG----------------UCCCAGGUUCUGGCUCAUAAACGGAGUGUAAAAAUCGCAAUAA
.(.((((.((((.(....).))))((((((.((.((((((...))----------------)))))).)))))).........)))).)............... ( -29.70)
>consensus
CCGCUCCUGACCAGGUUCCAG_______GAGCCCGGGACCCAGGGCUCCGGGGUCCCAGAGCUCCAGGUUCUGGCUCAUAAACGGAGUGUAAAAAUCGCAAUAA
.((((((......(....).........((((.(((((((..((((((.((....)).))))))..)))))))))))......))))))............... (-31.88 = -32.50 +   0.62) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:11 2006