Locus 1958

Sequence ID X_DroMel_CAF1
Location 5,374,882 – 5,375,002
Length 120
Max. P 0.997089
window3182 window3183

overview

Window 2

Location 5,374,882 – 5,375,002
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.25
Mean single sequence MFE -59.03
Consensus MFE -51.62
Energy contribution -52.10
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -1.84
Structure conservation index 0.87
SVM decision value 1.84
SVM RNA-class probability 0.979467
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5374882 120 + 22224390
UGAUCAUGUGGAAGUCCUUGCUGGAGGCGGCCGCGCCGGCACCAGCGGCAUUGGCGGCGUCCAGCAGCGGAUGAUAGCUGGGCGGGGCACAGCCAGUAACCACCGCGCCAGCGCCCAAGU
........(((..((((((((((((.((.((((.((((.......))))..)))).)).)))))))).))))....(((((((((((.((.....))..)).)))).)))))..)))... ( -59.30)
>DroSec_CAF1 56342 120 + 1
UGAUCAUGUGGAAGUCCUUGCUGGAGGCAGCCGCGCCGGCACCAGCGGCAUUGGCGGCGUCCAGCAGCGGAUGAUAACUGGGCGGGGCACAGCCACUAACCGCCGCGCCACCGCCCAAGU
.......((....((((((((((((.((.((((.((((.......))))..)))).)).)))))))).))))....))((((((((((.(.((........)).).))).)))))))... ( -60.10)
>DroSim_CAF1 43296 120 + 1
UGAUCAUGUGGAAGUCCUUGCUGGAAGCGGCCGCGCCGGCACCAGCGGCAUUGGCGGCGUCCAGCAGCGGAUGAUAGCUGGGCGGGGCACAGCCACUAACCGCCGCGCCACCGCCCAAGU
.......((....((((((((((((.((.((((.((((.......))))..)))).)).)))))))).))))....))((((((((((.(.((........)).).))).)))))))... ( -60.10)
>DroEre_CAF1 49605 120 + 1
UGAUCAUGUGGAAGUCCUUGCUGGAGGCGGCCGCGCCGGCACCAGCGGCAUUGGCGGCGUCCAGCAGCGGAUGAUAGCUGGGCGGGGCACAGCCACUAACGCCCGCCCCGCUGCCCAAGU
........(((..((((((((((((.((.((((.((((.......))))..)))).)).)))))))).))))..((((.(((((((((...))).(....).)))))).)))).)))... ( -60.60)
>DroYak_CAF1 48594 120 + 1
UGAUCAUGUGGAAGUCCUUGCUGGAGGCCGCCGCUCCGGCACCAGCGGCAUUGGCGGCGUCCAGCAGCGGAUGAUAGCUGGGCGGAGCACAGCCACUAACCCCCGCGCCGCCGCCCAAGU
.......((....((((((((((((.(((((((..(((.......)))...))))))).)))))))).))))....))(((((((.((.(..............).))..)))))))... ( -55.04)
>consensus
UGAUCAUGUGGAAGUCCUUGCUGGAGGCGGCCGCGCCGGCACCAGCGGCAUUGGCGGCGUCCAGCAGCGGAUGAUAGCUGGGCGGGGCACAGCCACUAACCCCCGCGCCACCGCCCAAGU
.......((....((((((((((((.((.((((.((((.......))))..)))).)).)))))))).))))....))((((((((((.(..............).))).)))))))... (-51.62 = -52.10 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 5,374,882 – 5,375,002
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.25
Mean single sequence MFE -59.66
Consensus MFE -55.14
Energy contribution -56.10
Covariance contribution 0.96
Combinations/Pair 1.05
Mean z-score -1.93
Structure conservation index 0.92
SVM decision value 2.80
SVM RNA-class probability 0.997089
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5374882 120 - 22224390
ACUUGGGCGCUGGCGCGGUGGUUACUGGCUGUGCCCCGCCCAGCUAUCAUCCGCUGCUGGACGCCGCCAAUGCCGCUGGUGCCGGCGCGGCCGCCUCCAGCAAGGACUUCCACAUGAUCA
...((((.(((((.((((.(((.((.....)))))))))))))).....(((..(((((((.((.(((..((((((....).))))).))).)).))))))).)))..))))........ ( -56.80)
>DroSec_CAF1 56342 120 - 1
ACUUGGGCGGUGGCGCGGCGGUUAGUGGCUGUGCCCCGCCCAGUUAUCAUCCGCUGCUGGACGCCGCCAAUGCCGCUGGUGCCGGCGCGGCUGCCUCCAGCAAGGACUUCCACAUGAUCA
..((((((((.((((((((........))))))))))))))))......(((..(((((((.((.(((..((((((....).))))).))).)).))))))).))).............. ( -63.60)
>DroSim_CAF1 43296 120 - 1
ACUUGGGCGGUGGCGCGGCGGUUAGUGGCUGUGCCCCGCCCAGCUAUCAUCCGCUGCUGGACGCCGCCAAUGCCGCUGGUGCCGGCGCGGCCGCUUCCAGCAAGGACUUCCACAUGAUCA
..((((((((.((((((((........))))))))))))))))......(((..(((((((.((.(((..((((((....).))))).))).)).))))))).))).............. ( -63.50)
>DroEre_CAF1 49605 120 - 1
ACUUGGGCAGCGGGGCGGGCGUUAGUGGCUGUGCCCCGCCCAGCUAUCAUCCGCUGCUGGACGCCGCCAAUGCCGCUGGUGCCGGCGCGGCCGCCUCCAGCAAGGACUUCCACAUGAUCA
...((((.(((.(((((((.((..........))))))))).)))....(((..(((((((.((.(((..((((((....).))))).))).)).))))))).)))..))))........ ( -55.60)
>DroYak_CAF1 48594 120 - 1
ACUUGGGCGGCGGCGCGGGGGUUAGUGGCUGUGCUCCGCCCAGCUAUCAUCCGCUGCUGGACGCCGCCAAUGCCGCUGGUGCCGGAGCGGCGGCCUCCAGCAAGGACUUCCACAUGAUCA
..((((((((.(((((((..........)))))))))))))))......(((..(((((((.((((((....((((....).)))...)))))).))))))).))).............. ( -58.80)
>consensus
ACUUGGGCGGUGGCGCGGCGGUUAGUGGCUGUGCCCCGCCCAGCUAUCAUCCGCUGCUGGACGCCGCCAAUGCCGCUGGUGCCGGCGCGGCCGCCUCCAGCAAGGACUUCCACAUGAUCA
..((((((((.((((((((........))))))))))))))))......(((..(((((((.((.(((..((((((....).))))).))).)).))))))).))).............. (-55.14 = -56.10 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:48 2006