Locus 6381

Sequence ID 2R_DroMel_CAF1
Location 19,967,945 – 19,968,055
Length 110
Max. P 0.908836
window10187 window10188

overview

Window 7

Location 19,967,945 – 19,968,055
Length 110
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 77.04
Mean single sequence MFE -23.65
Consensus MFE -17.66
Energy contribution -17.71
Covariance contribution 0.06
Combinations/Pair 1.22
Mean z-score -1.48
Structure conservation index 0.75
SVM decision value 1.06
SVM RNA-class probability 0.908836
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19967945 110 + 20766785
UUAUUUCGACUUGGCCGGAGUUUCCACUUUUUCCACUUACAAUGUAUGCCUCUGACACAUUUCAAGGCAUU-UUCCGGCUUGGU-UUGC----GCU---UUGUUUUCUUCCAGUUUUCA
.......((((.((((((((..............((.......))((((((.(((......))))))))).-)))))))).)))-)...----...---.................... ( -24.00)
>DroSec_CAF1 9088 110 + 1
UUAUUUCGACUUGGCCGGAGUUUCCAGUUUUUCCACUUACAAUGUAUGCCUCUGACACAUUUCAAGGCAUU-UUCCGGCUGGGC-UUGC----GCU---UUGUUUUCCUCCAGUUUUCA
......(((((..(((((((.....(((......)))........((((((.(((......))))))))).-)))))))..)).-))).----...---.................... ( -25.40)
>DroEre_CAF1 8974 110 + 1
UUAUUUCGGCUUGGCCGGAGUUCCCAGUUUUUCCACUUACAAUGUAUGCCUCUGACACAUUUCAAGGCAUU-UUCCGGCUGGGU-UUGC----GCU---UUGUUUUCCUCCAGUUUUCA
.......((((..(((((((.....(((......)))........((((((.(((......))))))))).-)))))))..)))-)...----...---.................... ( -26.70)
>DroWil_CAF1 14048 99 + 1
UUAUGUUGGCAUGACUGAAACU-------------------CUAUAUGCCUCAGACACAUUUCAAGGCAUUUUUCCGGCUUUGG-UUGUUGUUGCUUACUUGUUUUGGUUUUGGUUUAA
.........((.(((..((((.-------------------......((..(((.((....(((((((.........)))))))-.)))))..))......))))..))).))...... ( -19.32)
>DroYak_CAF1 9138 110 + 1
UUAUUUCGACUUGGCCGGAGUUUCCAGUUUUUCCACUCACAAUGUAUGCCUCUGACACAUUUCAAGGCAUU-UUCCGGCUGGGA-UUGU----GCU---UUGUUUUCUUCCAGUUUUUA
......(((((..(((((((.....(((......)))........((((((.(((......))))))))).-)))))))..)).-))).----...---.................... ( -25.60)
>DroAna_CAF1 8823 102 + 1
UGAUUUUGACUUGGCUGGAGUUUUUAGUU-UUCCAUUUACAAAGUAUGCCUCUGACACAUUUCAAGGCGUU-UUCAGACUGGGAUUUCC----GUU---UUGUUUUCGUU--------A
.((....(((..(((.((((.((((((((-(..............((((((.(((......))))))))).-...))))))))).))))----)))---..))).))...--------. ( -20.87)
>consensus
UUAUUUCGACUUGGCCGGAGUUUCCAGUUUUUCCACUUACAAUGUAUGCCUCUGACACAUUUCAAGGCAUU_UUCCGGCUGGGA_UUGC____GCU___UUGUUUUCCUCCAGUUUUCA
.........((..(((((((.........................((((((.(((......)))))))))..)))))))..)).................................... (-17.66 = -17.71 +   0.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,967,945 – 19,968,055
Length 110
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 77.04
Mean single sequence MFE -21.23
Consensus MFE -14.16
Energy contribution -14.75
Covariance contribution 0.59
Combinations/Pair 1.19
Mean z-score -1.38
Structure conservation index 0.67
SVM decision value 0.52
SVM RNA-class probability 0.767509
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19967945 110 - 20766785
UGAAAACUGGAAGAAAACAA---AGC----GCAA-ACCAAGCCGGAA-AAUGCCUUGAAAUGUGUCAGAGGCAUACAUUGUAAGUGGAAAAAGUGGAAACUCCGGCCAAGUCGAAAUAA
....................---...----....-.....((((((.-.(((((((((......))).))))))....................(....)))))))............. ( -21.60)
>DroSec_CAF1 9088 110 - 1
UGAAAACUGGAGGAAAACAA---AGC----GCAA-GCCCAGCCGGAA-AAUGCCUUGAAAUGUGUCAGAGGCAUACAUUGUAAGUGGAAAAACUGGAAACUCCGGCCAAGUCGAAAUAA
.((...((((((........---.((----....-))((((......-.(((((((((......))).)))))).(((.....)))......))))...)))))).....))....... ( -28.20)
>DroEre_CAF1 8974 110 - 1
UGAAAACUGGAGGAAAACAA---AGC----GCAA-ACCCAGCCGGAA-AAUGCCUUGAAAUGUGUCAGAGGCAUACAUUGUAAGUGGAAAAACUGGGAACUCCGGCCAAGCCGAAAUAA
........(((((....)..---...----....-.(((((......-.(((((((((......))).)))))).(((.....)))......)))))..))))(((...)))....... ( -24.90)
>DroWil_CAF1 14048 99 - 1
UUAAACCAAAACCAAAACAAGUAAGCAACAACAA-CCAAAGCCGGAAAAAUGCCUUGAAAUGUGUCUGAGGCAUAUAG-------------------AGUUUCAGUCAUGCCAACAUAA
.................((((...(((.......-((......)).....)))))))....(((.(((((((......-------------------.))))))).))).......... ( -14.40)
>DroYak_CAF1 9138 110 - 1
UAAAAACUGGAAGAAAACAA---AGC----ACAA-UCCCAGCCGGAA-AAUGCCUUGAAAUGUGUCAGAGGCAUACAUUGUGAGUGGAAAAACUGGAAACUCCGGCCAAGUCGAAAUAA
......(((((......((.---..(----((((-(((.....))).-.(((((((((......))).))))))...)))))..))........(....)))))).............. ( -23.70)
>DroAna_CAF1 8823 102 - 1
U--------AACGAAAACAA---AAC----GGAAAUCCCAGUCUGAA-AACGCCUUGAAAUGUGUCAGAGGCAUACUUUGUAAAUGGAA-AACUAAAAACUCCAGCCAAGUCAAAAUCA
.--------...((..((((---(.(----(((........))))..-...(((((((......))).))))....)))))...((((.-..........))))............)). ( -14.60)
>consensus
UGAAAACUGGAAGAAAACAA___AGC____GCAA_ACCCAGCCGGAA_AAUGCCUUGAAAUGUGUCAGAGGCAUACAUUGUAAGUGGAAAAACUGGAAACUCCGGCCAAGUCGAAAUAA
........................................((((((...(((((((((......)).)))))))....................(....)))))))............. (-14.16 = -14.75 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:38 2006