Locus 2685

Sequence ID 3R_DroMel_CAF1
Location 7,219,469 – 7,219,607
Length 138
Max. P 0.786178
window4357 window4358

overview

Window 7

Location 7,219,469 – 7,219,575
Length 106
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 91.04
Mean single sequence MFE -39.10
Consensus MFE -34.59
Energy contribution -35.75
Covariance contribution 1.17
Combinations/Pair 1.00
Mean z-score -1.54
Structure conservation index 0.88
SVM decision value 0.57
SVM RNA-class probability 0.786178
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7219469 106 + 27905053
GUUUAGAGGGAUAUGUUUGCCUGCUCUCCGUCCGGCGAAUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCUGCAAUAUCU------CAUCUUCGAUUGCAGCU
......(((((((.(((((((((((((..((((.(.......).))))-.))))))))))))).....))))))---)..(((((((((....------........))))))))) ( -43.10)
>DroSec_CAF1 51347 106 + 1
GUUUAGAGGGAUAUGUUUGCCUGCUCUCCGUCCGGCGACUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCCGCAAUAUCU------CAUCUUCGAUUGCAGCU
......(((((((.(((((((((((((..((((.(.......).))))-.))))))))))))).....))))))---)..(((.(((((....------........))))).))) ( -38.50)
>DroSim_CAF1 48017 106 + 1
GUUUAGAGGGAUAUGUUUGCCUGCUCUCCGUCCGGCGACUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCCGCAAUAUCU------CAUCUUCGAUUGCAGCU
......(((((((.(((((((((((((..((((.(.......).))))-.))))))))))))).....))))))---)..(((.(((((....------........))))).))) ( -38.50)
>DroEre_CAF1 56458 105 + 1
GUUUAGAGGGAUAUGUUUGCCUGCUCUCCGUCCGGCGACUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCUGCAAU-ACU------CAUCUCCGAUUGCAACU
......(((((((.(((((((((((((..((((.(.......).))))-.))))))))))))).....))))))---)..((.((((((-.(.------.......))))))).)) ( -37.00)
>DroYak_CAF1 56788 106 + 1
GUUUAGAGGGAUAUGUUUGCCUGCUCUCCGUCCGGCGACUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCUGCAAUAACU------CAUCUCCGAUUGCAACU
......(((((((.(((((((((((((..((((.(.......).))))-.))))))))))))).....))))))---)..((.((((((....------........)))))).)) ( -36.50)
>DroAna_CAF1 50446 116 + 1
GUUUAGAGGGAUAUGUUUGCCUGCUCUCCGUCCGGCGAUUCAUUGGGCAAGGGGCCGGCAAACCCUGUUGUUGCUGCUGCAGCUGCAACACUCCAUCACCAUCUACGAUUGCAGCU
...(((((((((..(((((((.(((((..((((((.......))))))..))))).)))))))..((((((.((((...)))).))))))....))).)).))))........... ( -41.00)
>consensus
GUUUAGAGGGAUAUGUUUGCCUGCUCUCCGUCCGGCGACUUUUGGGGC_UGGGGCGGGCAAACCCUGUUGUUCC___UGCAGCUGCAAUAUCU______CAUCUUCGAUUGCAGCU
((.....((((((.(((((((((((((..((((.(.......).))))..))))))))))))).....))))))....))(((((((((..................))))))))) (-34.59 = -35.75 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 7,219,506 – 7,219,607
Length 101
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 87.36
Mean single sequence MFE -35.01
Consensus MFE -25.41
Energy contribution -26.44
Covariance contribution 1.03
Combinations/Pair 1.04
Mean z-score -3.16
Structure conservation index 0.73
SVM decision value 0.19
SVM RNA-class probability 0.624115
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7219506 101 + 27905053
AAUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCUGCAAUAUCU------CAUCUUCGAUUGCAGCUGCA----CAGCGACAACAGCAA-CAACAUCAUUAACU
....(((..((-((....(((....)))(((((((..---((((((((((((....------........))))))))))))----.))))))).))))..-)))........... ( -38.40)
>DroSec_CAF1 51384 101 + 1
ACUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCCGCAAUAUCU------CAUCUUCGAUUGCAGCUGCA----CAGCGACAACAGCAA-CAACAUCAUUAACU
....(((..((-((....(((....)))(((((((..---((((((.(((((....------........))))).))))))----.))))))).))))..-)))........... ( -33.80)
>DroSim_CAF1 48054 101 + 1
ACUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCCGCAAUAUCU------CAUCUUCGAUUGCAGCUGCA----CAGCGACAACAGCAA-CAACAUCAUUAACU
....(((..((-((....(((....)))(((((((..---((((((.(((((....------........))))).))))))----.))))))).))))..-)))........... ( -33.80)
>DroEre_CAF1 56495 100 + 1
ACUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCUGCAAU-ACU------CAUCUCCGAUUGCAACUGCA----AAGCGACAACAGCAA-CAACAUCAUUAACU
....(((..((-((....(((....)))(((((((..---(((((.((((((-.(.------.......))))))).)))))----.))))))).))))..-)))........... ( -33.10)
>DroYak_CAF1 56825 101 + 1
ACUUUUGGGGC-UGGGGCGGGCAAACCCUGUUGUUCC---UGCAGCUGCAAUAACU------CAUCUCCGAUUGCAACUGCA----AAGCGACAACAGCAA-CAACAUCAUUAACU
....(((..((-((....(((....)))(((((((..---(((((.((((((....------........)))))).)))))----.))))))).))))..-)))........... ( -32.60)
>DroAna_CAF1 50483 116 + 1
AUUCAUUGGGCAAGGGGCCGGCAAACCCUGUUGUUGCUGCUGCAGCUGCAACACUCCAUCACCAUCUACGAUUGCAGCUGCAACCGAAGCAACAACAGAAAUUAACAUCAUCAACU
.....((((((.....)))........(((((((((((..(((((((((((....................))))))))))).....))))))))))).............))).. ( -38.35)
>consensus
ACUUUUGGGGC_UGGGGCGGGCAAACCCUGUUGUUCC___UGCAGCUGCAAUAUCU______CAUCUUCGAUUGCAGCUGCA____AAGCGACAACAGCAA_CAACAUCAUUAACU
.........((.(((((........)))(((((((.....((((((((((((..................)))))))))))).....))))))).))))................. (-25.41 = -26.44 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:11 2006