Locus 3140

Sequence ID 3R_DroMel_CAF1
Location 8,291,351 – 8,291,451
Length 100
Max. P 0.724327
window5088

overview

Window 8

Location 8,291,351 – 8,291,451
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.75
Mean single sequence MFE -38.02
Consensus MFE -23.63
Energy contribution -26.30
Covariance contribution 2.67
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.62
SVM decision value 0.41
SVM RNA-class probability 0.724327
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8291351 100 + 27905053
--------------CUUUAGUCGACCUCCUCGACUGUGGGUCCAGAGUAGCCGCCAAAUCCUCCGGCCUGUUGGCCACAGUUGGCUCCCGGACCCCCAGCUGCUCCC------GCUCCCU
--------------...(((((((.....))))))).(((..(.(((((((.(((((.......((((....))))....)))))....((....)).)))))))..------)..))). ( -38.30)
>DroSec_CAF1 2968 106 + 1
--------------CUUUAGUCGACCUCCUCCACUGUGGGUCCAGAGUAGCCGCCAAAUCCUCCGGCCUGUUGGCCGCAGUUGGCUCCCGGUCCACCAGCUGCUCCCGCUCCCGCUCCCU
--------------....(((.((.....)).)))(((((..(.(((((((.(((((...((.(((((....))))).)))))))....((....)).)))))))..)..)))))..... ( -39.20)
>DroSim_CAF1 2969 106 + 1
--------------CUUUAGUCGACCUCCUCCACUGUGGGUCCAGAGUAGCCGCCAAAUCCUCCGGCCUGUUGGCCGCAGUUGGCUCCCGGUCCACCAGCUGCUCCCGCUCCCGCUCCCU
--------------....(((.((.....)).)))(((((..(.(((((((.(((((...((.(((((....))))).)))))))....((....)).)))))))..)..)))))..... ( -39.20)
>DroEre_CAF1 2975 106 + 1
--------------CUUUAGUCGACCUCCUCGACAGUGGGUCCAGAGUAGCCGCCAAAUCCUCCAGCCUGUUGGCCGCAGUUGGCUCCCGGACUACCAGCUGCUCCUGCGCCCGCUGCCU
--------------.....(((((.....)))))(((((((.(((((((((.(((((...((.(.(((....))).).)))))))....((....)).)))))).))).))))))).... ( -42.70)
>DroYak_CAF1 3031 106 + 1
--------------CUUUAGUCAACCUCCUCGACUGUUGGCCCAGAGUAGCCCCCAAAUCCUCCUGCCUGCUGACCGCAGUUGGCUCCCGGGCCACCAGCUGCUCCUGCUCCCGCUGCCU
--------------...(((((.........))))).((((((.(((.............)))..(((.((((....)))).)))....)))))).((((.((....))....))))... ( -30.52)
>DroPer_CAF1 3364 114 + 1
UCCUUACAAGCGUCCCUUAGUCGACCUCCUCGACAGUGGGUCCAGAAAAGCCUCCAAAUCCGCCGGCCUGCUGGCCACAGUUGGCUCCUGCC------GCAGGACCUGCCGCAGCGCCCU
.........((((..(...(((((.....))))).(..(((((.((......)).......((.((((....))))......(((....)))------)).)))))..).)..))))... ( -38.20)
>consensus
______________CUUUAGUCGACCUCCUCGACUGUGGGUCCAGAGUAGCCGCCAAAUCCUCCGGCCUGUUGGCCGCAGUUGGCUCCCGGACCACCAGCUGCUCCCGCUCCCGCUCCCU
......................((((..(......)..))))..(((((((.(((((...((.(((((....))))).)))))))....((....)).)))))))............... (-23.63 = -26.30 +   2.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:01 2006