Locus 5580

Sequence ID 3R_DroMel_CAF1
Location 14,753,797 – 14,753,908
Length 111
Max. P 0.552271
window9093 window9094

overview

Window 3

Location 14,753,797 – 14,753,908
Length 111
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 83.57
Mean single sequence MFE -29.58
Consensus MFE -24.29
Energy contribution -25.23
Covariance contribution 0.95
Combinations/Pair 1.19
Mean z-score -1.45
Structure conservation index 0.82
SVM decision value 0.04
SVM RNA-class probability 0.552271
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14753797 111 + 27905053
CGAGAGCAGCCACCGGAAUACCCCAGUUGGCCACCGGGCCCCAGAAGUGGGUACUGUGGAUAUAAAAAGCAAUAUUUACAAUAAGUCAUAU---AAGGCCAAUUGAUAACCAAC
..............((.....))(((((((((...((..((((....))))..))((((((((........))))))))............---..)))))))))......... ( -27.90)
>DroSec_CAF1 12822 111 + 1
CGAGAGCAGCCACCGGAAUGCCCCAGUUGGCCACCGGGCCCCAGAAGUGGGUACUGUGGAUAUAAAAAGCAAUAUUUACAAUAAGUCAUAU---AUGGUCAACUGAUAACCAAU
.....(((..(....)..)))..((((((((((...(((((((....))))...(((((((((........)))))))))....)))....---.))))))))))......... ( -29.50)
>DroSim_CAF1 13981 111 + 1
CGAGAGCAGCCACCGGAAUGCCCCAGUUGGCCACAGGGCCCCAGAAGUGGGUACUGUGGAUAUAAAAAGUAAUAUUUACAAUAAGUCAUAU---AUGGCCAACUGAUAACCAAU
.....(((..(....)..)))..((((((((((.(.(((((((....))))...(((((((((........)))))))))....)))...)---.))))))))))......... ( -32.20)
>DroEre_CAF1 12948 111 + 1
CGAGAGCAGCCACCGGGAUGCCCCAGUUCGCCACAGGGCCCCAAAAGUGGGUACUGCGGAUAUAAAAAGGAAUAUUUACAAUAUGCCAUAU---AUGGUCAACUGAUAACCACC
.....(((.((....)).)))..(((((.((((.(.(((((((....))))...((..(((((........)))))..))....)))...)---.)))).)))))......... ( -26.80)
>DroWil_CAF1 14696 113 + 1
CGAGAGCGGCCACCGGGAUGCCCCAAUUGGCUACUGGACCCCAGAAAUGGGUGCUGUAAAUAUGCAAAUAUUGAUUAAUACUAAUCCAAAUUGCAUUGCCAAUUGACUGCGAG-
.....((((.....(((...)))(((((((((((.((..((((....))))..)))))...((((((.....(((((....)))))....)))))).)))))))).))))...- ( -35.20)
>DroYak_CAF1 12457 111 + 1
CGAGAGCAGCCACAGGAAUACCCCAGUUGGCCACAGGGCCCCAAAAGUGGGUACUGUGGAUAAGAAAAAGAAUAUUAACAAUAUGUCAUAU---AUGGUCAACUGAUUACCACC
..............(((((....(((((((((((((..((((....).)))..))))............((((((.....)))).))....---..)))))))))))).))... ( -25.90)
>consensus
CGAGAGCAGCCACCGGAAUGCCCCAGUUGGCCACAGGGCCCCAGAAGUGGGUACUGUGGAUAUAAAAAGCAAUAUUUACAAUAAGUCAUAU___AUGGCCAACUGAUAACCAAC
..............((.....))((((((((((..((..((((....))))..))((((((((........))))))))................))))))))))......... (-24.29 = -25.23 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 14,753,797 – 14,753,908
Length 111
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 83.57
Mean single sequence MFE -33.34
Consensus MFE -24.16
Energy contribution -25.13
Covariance contribution 0.98
Combinations/Pair 1.20
Mean z-score -1.64
Structure conservation index 0.72
SVM decision value -0.01
SVM RNA-class probability 0.530131
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14753797 111 - 27905053
GUUGGUUAUCAAUUGGCCUU---AUAUGACUUAUUGUAAAUAUUGCUUUUUAUAUCCACAGUACCCACUUCUGGGGCCCGGUGGCCAACUGGGGUAUUCCGGUGGCUGCUCUCG
((((((((((....((((((---(.......((((((..((((........))))..))))))........))))))).)))))))))).((((((..(....)..)))))).. ( -30.16)
>DroSec_CAF1 12822 111 - 1
AUUGGUUAUCAGUUGACCAU---AUAUGACUUAUUGUAAAUAUUGCUUUUUAUAUCCACAGUACCCACUUCUGGGGCCCGGUGGCCAACUGGGGCAUUCCGGUGGCUGCUCUCG
..((((((.....)))))).---........((((((..((((........))))..))))))((((....))))....((..((((.(((((....)))))))))..)).... ( -31.30)
>DroSim_CAF1 13981 111 - 1
AUUGGUUAUCAGUUGGCCAU---AUAUGACUUAUUGUAAAUAUUACUUUUUAUAUCCACAGUACCCACUUCUGGGGCCCUGUGGCCAACUGGGGCAUUCCGGUGGCUGCUCUCG
.........(((((((((((---(.......((((((..((((........))))..))))))((((....))))....))))))))))))(((((..(....)..)))))... ( -35.60)
>DroEre_CAF1 12948 111 - 1
GGUGGUUAUCAGUUGACCAU---AUAUGGCAUAUUGUAAAUAUUCCUUUUUAUAUCCGCAGUACCCACUUUUGGGGCCCUGUGGCGAACUGGGGCAUCCCGGUGGCUGCUCUCG
.(((((((.....)))))))---....(((.((((((..((((........))))..))))))((((....)))))))..(..((..((((((....)))))).))..)..... ( -37.00)
>DroWil_CAF1 14696 113 - 1
-CUCGCAGUCAAUUGGCAAUGCAAUUUGGAUUAGUAUUAAUCAAUAUUUGCAUAUUUACAGCACCCAUUUCUGGGGUCCAGUAGCCAAUUGGGGCAUCCCGGUGGCCGCUCUCG
-...((...((((((((.((((((....(((((....))))).....))))))...(((.(.((((.......)))).).)))))))))))((.(((....))).))))..... ( -35.80)
>DroYak_CAF1 12457 111 - 1
GGUGGUAAUCAGUUGACCAU---AUAUGACAUAUUGUUAAUAUUCUUUUUCUUAUCCACAGUACCCACUUUUGGGGCCCUGUGGCCAACUGGGGUAUUCCUGUGGCUGCUCUCG
((..((...((((((.....---...((((.....))))................((((((..(((.(....))))..)))))).))))))(((....)))...))..)).... ( -30.20)
>consensus
GUUGGUUAUCAGUUGACCAU___AUAUGACUUAUUGUAAAUAUUCCUUUUUAUAUCCACAGUACCCACUUCUGGGGCCCUGUGGCCAACUGGGGCAUUCCGGUGGCUGCUCUCG
..((((((.....))))))............((((((..((((........))))..))))))((((....)))).....(..((((.(((((....)))))))))..)..... (-24.16 = -25.13 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:34 2006