Locus 8087

Sequence ID X_DroMel_CAF1
Location 20,129,898 – 20,130,040
Length 142
Max. P 0.988905
window13275 window13276 window13277

overview

Window 5

Location 20,129,898 – 20,130,010
Length 112
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 90.96
Mean single sequence MFE -27.93
Consensus MFE -22.72
Energy contribution -23.17
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.90
Structure conservation index 0.81
SVM decision value 0.94
SVM RNA-class probability 0.885422
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20129898 112 + 22224390
------UUAGUCCACAGAAUGCCACAGAAGUGCAUG--UGGUAUUGAAAUCACAAGAACCUAAAAGUAUGCAGUGAAAAUACAAUUUAAAAUGUAACGCAGCAUACUUUUACACACCUUU
------...........(((((((((........))--)))))))...............(((((((((((.(((....((((........)))).))).)))))))))))......... ( -26.70)
>DroSec_CAF1 31367 120 + 1
UUUCCACUAGUCCACAGAAUGCCACAGAAGUGCAUGUGUGGUGUUGAAAUCACAAGAACCUGAAAGUAUGCAAUGAAAAUACAUUCUAAAAUGUAGCGCAGCAUACUUUUACACACCCUU
((((.((....(((((..((((.((....)))))).))))).)).))))...........(((((((((((..((....((((((....)))))).))..)))))))))))......... ( -30.30)
>DroSim_CAF1 14828 114 + 1
------CUAGUCCACAGAAUGCCACAGAAGUGCAUGUGUGGUGUUGAAAUCACAAGAACCUGAAAGUAUGCAAUGAAAAUACAUUCUAAAAUGUAACGCAGCAUACUUUUACACACCCUU
------............((((.((....))))))((((((((.......))).......(((((((((((..((....((((((....))))))...)))))))))))))))))).... ( -26.80)
>consensus
______CUAGUCCACAGAAUGCCACAGAAGUGCAUGUGUGGUGUUGAAAUCACAAGAACCUGAAAGUAUGCAAUGAAAAUACAUUCUAAAAUGUAACGCAGCAUACUUUUACACACCCUU
...........((((...((((.((....))))))..))))...................(((((((((((..((....((((((....))))))...)))))))))))))......... (-22.72 = -23.17 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,129,930 – 20,130,040
Length 110
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 92.12
Mean single sequence MFE -25.63
Consensus MFE -24.23
Energy contribution -24.34
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -3.03
Structure conservation index 0.95
SVM decision value 2.14
SVM RNA-class probability 0.988905
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20129930 110 + 22224390
GUAUUGAAAUCACAAGAACCUAAAAGUAUGCAGUGAAAAUACAAUUUAAAAUGUAACGCAGCAUACUUUUACACACCUUUAUACAUACAUGUGUGCUAUAUUGUGUUCAU
....((((..(((((.....(((((((((((.(((....((((........)))).))).)))))))))))(((((..............))))).....))))))))). ( -24.54)
>DroSec_CAF1 31407 106 + 1
GUGUUGAAAUCACAAGAACCUGAAAGUAUGCAAUGAAAAUACAUUCUAAAAUGUAGCGCAGCAUACUUUUACACACCCUUAUA----CAUGUGUGAUAUGUUGUGUUCAU
....((((..(((((.(...(((((((((((..((....((((((....)))))).))..)))))))))))(((((.......----...)))))...).))))))))). ( -27.00)
>DroSim_CAF1 14862 110 + 1
GUGUUGAAAUCACAAGAACCUGAAAGUAUGCAAUGAAAAUACAUUCUAAAAUGUAACGCAGCAUACUUUUACACACCCUUAUACAUACAUGUGUGAUAUGUUGUGUUCAU
....((((..(((((.(...(((((((((((..((....((((((....))))))...)))))))))))))(((((..............)))))...).))))))))). ( -25.34)
>consensus
GUGUUGAAAUCACAAGAACCUGAAAGUAUGCAAUGAAAAUACAUUCUAAAAUGUAACGCAGCAUACUUUUACACACCCUUAUACAUACAUGUGUGAUAUGUUGUGUUCAU
....((((..(((((.....(((((((((((..((....((((((....))))))...)))))))))))))(((((..............))))).....))))))))). (-24.23 = -24.34 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,129,930 – 20,130,040
Length 110
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 92.12
Mean single sequence MFE -25.81
Consensus MFE -22.13
Energy contribution -23.02
Covariance contribution 0.89
Combinations/Pair 1.03
Mean z-score -2.34
Structure conservation index 0.86
SVM decision value 0.66
SVM RNA-class probability 0.814742
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20129930 110 - 22224390
AUGAACACAAUAUAGCACACAUGUAUGUAUAAAGGUGUGUAAAAGUAUGCUGCGUUACAUUUUAAAUUGUAUUUUCACUGCAUACUUUUAGGUUCUUGUGAUUUCAAUAC
.(((((((((....((((((...((....))...))))))((((((((((.(.(.((((........))))....).).))))))))))......)))))..)))).... ( -26.50)
>DroSec_CAF1 31407 106 - 1
AUGAACACAACAUAUCACACAUG----UAUAAGGGUGUGUAAAAGUAUGCUGCGCUACAUUUUAGAAUGUAUUUUCAUUGCAUACUUUCAGGUUCUUGUGAUUUCAACAC
.(((((((((...(((((((((.----(....).)))))).(((((((((.....((((((....))))))........)))))))))..)))..)))))..)))).... ( -25.12)
>DroSim_CAF1 14862 110 - 1
AUGAACACAACAUAUCACACAUGUAUGUAUAAGGGUGUGUAAAAGUAUGCUGCGUUACAUUUUAGAAUGUAUUUUCAUUGCAUACUUUCAGGUUCUUGUGAUUUCAACAC
.(((((((((...(((((((((.(........).)))))).(((((((((.....((((((....))))))........)))))))))..)))..)))))..)))).... ( -25.82)
>consensus
AUGAACACAACAUAUCACACAUGUAUGUAUAAGGGUGUGUAAAAGUAUGCUGCGUUACAUUUUAGAAUGUAUUUUCAUUGCAUACUUUCAGGUUCUUGUGAUUUCAACAC
.(((((((((...(((((((((.(........).)))))).(((((((((.....((((((....))))))........)))))))))..)))..)))))..)))).... (-22.13 = -23.02 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:09 2006