Locus 8115

Sequence ID 3L_DroMel_CAF1
Location 21,347,325 – 21,347,425
Length 100
Max. P 0.803491
window13259 window13260

overview

Window 9

Location 21,347,325 – 21,347,425
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 90.33
Mean single sequence MFE -27.56
Consensus MFE -19.77
Energy contribution -20.77
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.57
Structure conservation index 0.72
SVM decision value 0.62
SVM RNA-class probability 0.803491
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21347325 100 + 23771897
AGAAACAUAACCAAAACCAAGUUGGAACCAAAACCAAGACCAGCACUAGGACCUAGGUCCUGCUGGAAUUUCGGCCAGCGGGAGGCAACUGGAAGCUAAC
..........((....((..(((((..............)))))...(((((....)))))(((((........))))))).((....))))........ ( -26.74)
>DroSec_CAF1 50117 100 + 1
AGAAACAUAACCAAAACCAAGUUGGAACCAAAACCAAGACCAGCACUAGGACCUAGGUCCUGCUGGAAUUUUGGCCAGCGGGAGGCAACUGCAAACUAAC
....................(((((..((((((......((((((...((((....))))))))))..))))))))))).(.((....)).)........ ( -29.30)
>DroSim_CAF1 51350 100 + 1
AGAAACAUAACCAAAACCAAGUUGGAACCAAAACCAAGACCAGCACUAGGACCUAGGUCCUGCUGGAAUUUUGGCCAGCGGGAGGCAACUGCAAACUAAC
....................(((((..((((((......((((((...((((....))))))))))..))))))))))).(.((....)).)........ ( -29.30)
>DroYak_CAF1 77762 95 + 1
AGAAGCAUAACCGAAACCAAGUUUGCACCCAAUCCAAGAGCCGCACCAGGACCUAGGUCCUGCUGGAAUUUUGGCCAGCCGA-----ACUGGAAACUAAC
...................(((((.........((((((..(.((.((((((....)))))).)))..))))))((((....-----.)))))))))... ( -24.90)
>consensus
AGAAACAUAACCAAAACCAAGUUGGAACCAAAACCAAGACCAGCACUAGGACCUAGGUCCUGCUGGAAUUUUGGCCAGCGGGAGGCAACUGCAAACUAAC
....................(((((........((((((((((((...((((....))))))))))..)))))))))))..................... (-19.77 = -20.77 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 21,347,325 – 21,347,425
Length 100
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 90.33
Mean single sequence MFE -30.67
Consensus MFE -22.86
Energy contribution -23.55
Covariance contribution 0.69
Combinations/Pair 1.07
Mean z-score -1.58
Structure conservation index 0.75
SVM decision value 0.02
SVM RNA-class probability 0.544486
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21347325 100 - 23771897
GUUAGCUUCCAGUUGCCUCCCGCUGGCCGAAAUUCCAGCAGGACCUAGGUCCUAGUGCUGGUCUUGGUUUUGGUUCCAACUUGGUUUUGGUUAUGUUUCU
..(((((.(((((((....(((..((((((....((((((((((....))))...))))))..)))))).)))...)))).)))....)))))....... ( -32.80)
>DroSec_CAF1 50117 100 - 1
GUUAGUUUGCAGUUGCCUCCCGCUGGCCAAAAUUCCAGCAGGACCUAGGUCCUAGUGCUGGUCUUGGUUUUGGUUCCAACUUGGUUUUGGUUAUGUUUCU
...((...(((...(((..(((.(((((((((((((((((((((....))))...))))))....))))))))..)))...)))....)))..)))..)) ( -30.00)
>DroSim_CAF1 51350 100 - 1
GUUAGUUUGCAGUUGCCUCCCGCUGGCCAAAAUUCCAGCAGGACCUAGGUCCUAGUGCUGGUCUUGGUUUUGGUUCCAACUUGGUUUUGGUUAUGUUUCU
...((...(((...(((..(((.(((((((((((((((((((((....))))...))))))....))))))))..)))...)))....)))..)))..)) ( -30.00)
>DroYak_CAF1 77762 95 - 1
GUUAGUUUCCAGU-----UCGGCUGGCCAAAAUUCCAGCAGGACCUAGGUCCUGGUGCGGCUCUUGGAUUGGGUGCAAACUUGGUUUCGGUUAUGCUUCU
(((.((.((((((-----((((..((((.......((.((((((....)))))).)).)))).)))))))))).)).))).................... ( -29.90)
>consensus
GUUAGUUUCCAGUUGCCUCCCGCUGGCCAAAAUUCCAGCAGGACCUAGGUCCUAGUGCUGGUCUUGGUUUUGGUUCCAACUUGGUUUUGGUUAUGUUUCU
.....................(((((((((((((((((((((((....))))...))))))..((((........))))...))))))))))).)).... (-22.86 = -23.55 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:37 2006