Locus 6928

Sequence ID 3L_DroMel_CAF1
Location 18,691,345 – 18,691,437
Length 92
Max. P 0.985533
window11233 window11234

overview

Window 3

Location 18,691,345 – 18,691,437
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.04
Mean single sequence MFE -31.02
Consensus MFE -17.06
Energy contribution -17.55
Covariance contribution 0.49
Combinations/Pair 1.22
Mean z-score -3.30
Structure conservation index 0.55
SVM decision value 2.01
SVM RNA-class probability 0.985533
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18691345 92 + 23771897
UCUGCACUGGCAAAACAAACAAUAAAAACUGGGCAA-AGAUCCUGCCC-----AUAAA---------------------UGCGGAGAGGUCGAGGGGGA-UGCAACCCUUUAAAGUGCAG
.((((((((((..................((((((.-......)))))-----)....---------------------..(.....))))((((((..-.....))))))..))))))) ( -27.50)
>DroSec_CAF1 20656 92 + 1
UCUGCACUGGCAAAACAAACAAUAAAAACUGGGCAA-AAAUCCUGCCC-----AGAAA---------------------UGCAGAGGGGUCGAGGGGGA-UGCAACCCUUUAAAGUGCAG
.((((((((((.................(((((((.-......)))))-----))...---------------------..(....).)))((((((..-.....))))))..))))))) ( -30.20)
>DroAna_CAF1 18714 117 + 1
UCUGCACUGGCAAAACAAACAAUAAGACCGGCACAAAAGAUCCUUUCCCUGUCAGAAGACGGGACAGACAGGGGCUGGGCGCACAGGACUCAGGGUCGA-GGCAAC--UUUAAAGUGCAG
.(((((((.................((((...........((((.((((((((....))))))...)).)))).((((((......).)))))))))((-(....)--))...))))))) ( -36.90)
>DroSim_CAF1 20680 92 + 1
UCUGCACUGGCAAAACAAACAAUAAAAACUGGGCAA-AGAUCCUGCCC-----AGAAA---------------------UGCAGAGGGGUCGAGGGGGA-UGCAACCCUUUAAAGUGCAG
.((((((((((.................(((((((.-......)))))-----))...---------------------..(....).)))((((((..-.....))))))..))))))) ( -30.20)
>DroEre_CAF1 20619 87 + 1
UCUGCACUGGCAAAACAAACAAUAAGAACUGGGCAA-AGAUCCUGCCC-----AGAAA---------------------UGCAGAGAGGUCG----GUGCAGCAAA--UUUAAAGUGCAG
.(((((((.((.................(((((((.-......)))))-----))...---------------------((((..(....).----.))))))...--.....))))))) ( -27.80)
>DroYak_CAF1 21520 93 + 1
UCUGCACUGGCAAAACAAACAAUAAAAACUGGGCAA-AGAUCCUGCCC-----AGAAA---------------------UGCGGAGAGGUCGAGGGGCACUGCAAGCCUUUAAAGUGCAG
.((((((((((.................(((((((.-......)))))-----))...---------------------(((((....(((....))).))))).))).....))))))) ( -33.50)
>consensus
UCUGCACUGGCAAAACAAACAAUAAAAACUGGGCAA_AGAUCCUGCCC_____AGAAA_____________________UGCAGAGAGGUCGAGGGGGA_UGCAACCCUUUAAAGUGCAG
.(((((((......................(((((........)))))............................................((((((.......))))))..))))))) (-17.06 = -17.55 +   0.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,691,345 – 18,691,437
Length 92
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.04
Mean single sequence MFE -29.14
Consensus MFE -17.50
Energy contribution -17.60
Covariance contribution 0.10
Combinations/Pair 1.19
Mean z-score -2.52
Structure conservation index 0.60
SVM decision value 1.41
SVM RNA-class probability 0.951667
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18691345 92 - 23771897
CUGCACUUUAAAGGGUUGCA-UCCCCCUCGACCUCUCCGCA---------------------UUUAU-----GGGCAGGAUCU-UUGCCCAGUUUUUAUUGUUUGUUUUGCCAGUGCAGA
(((((((.....((((((..-.......))))))....(((---------------------....(-----((((((.....-))))))).................))).))))))). ( -24.60)
>DroSec_CAF1 20656 92 - 1
CUGCACUUUAAAGGGUUGCA-UCCCCCUCGACCCCUCUGCA---------------------UUUCU-----GGGCAGGAUUU-UUGCCCAGUUUUUAUUGUUUGUUUUGCCAGUGCAGA
(((((((.....((((((..-.......))))))....(((---------------------...((-----((((((.....-))))))))................))).))))))). ( -29.11)
>DroAna_CAF1 18714 117 - 1
CUGCACUUUAAA--GUUGCC-UCGACCCUGAGUCCUGUGCGCCCAGCCCCUGUCUGUCCCGUCUUCUGACAGGGAAAGGAUCUUUUGUGCCGGUCUUAUUGUUUGUUUUGCCAGUGCAGA
(((((((.....--(..((.-..(((..((((.((.(.((((..((..(((.....(((((((....))).)))).)))..))...))))))).))))..))).))..)...))))))). ( -34.20)
>DroSim_CAF1 20680 92 - 1
CUGCACUUUAAAGGGUUGCA-UCCCCCUCGACCCCUCUGCA---------------------UUUCU-----GGGCAGGAUCU-UUGCCCAGUUUUUAUUGUUUGUUUUGCCAGUGCAGA
(((((((.....((((((..-.......))))))....(((---------------------...((-----((((((.....-))))))))................))).))))))). ( -29.11)
>DroEre_CAF1 20619 87 - 1
CUGCACUUUAAA--UUUGCUGCAC----CGACCUCUCUGCA---------------------UUUCU-----GGGCAGGAUCU-UUGCCCAGUUCUUAUUGUUUGUUUUGCCAGUGCAGA
(((((((..(((--(..((((((.----.(....)..))))---------------------...((-----((((((.....-))))))))........))..))))....))))))). ( -27.10)
>DroYak_CAF1 21520 93 - 1
CUGCACUUUAAAGGCUUGCAGUGCCCCUCGACCUCUCCGCA---------------------UUUCU-----GGGCAGGAUCU-UUGCCCAGUUUUUAUUGUUUGUUUUGCCAGUGCAGA
(((((((...(((((..((((((.....((.......))..---------------------...((-----((((((.....-))))))))....))))))..)))))...))))))). ( -30.70)
>consensus
CUGCACUUUAAAGGGUUGCA_UCCCCCUCGACCCCUCUGCA_____________________UUUCU_____GGGCAGGAUCU_UUGCCCAGUUUUUAUUGUUUGUUUUGCCAGUGCAGA
(((((((.....(((.......)))...............................................((((((......))))))......................))))))). (-17.50 = -17.60 +   0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:18 2006