Locus 8109

Sequence ID X_DroMel_CAF1
Location 20,171,242 – 20,171,442
Length 200
Max. P 0.984968
window13306 window13307 window13308

overview

Window 6

Location 20,171,242 – 20,171,362
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.67
Mean single sequence MFE -27.90
Consensus MFE -25.02
Energy contribution -24.58
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.64
Structure conservation index 0.90
SVM decision value 0.60
SVM RNA-class probability 0.794697
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20171242 120 + 22224390
UGCGAAAAUGUUGCCGUCAAUUCUGCACAAAAUAUGCAUAAAUACGGGCAUAAAUAAAUGUCUGGAUGGGCUCUCUCACACACUCGCACGCUCGCACAUAAACAAGCACACGGAUUCGCA
.(((((..((((((((((.....((((.......))))......(((((((......))))))))))).................((......))..........))).)))..))))). ( -26.90)
>DroSec_CAF1 2868 116 + 1
UGCGAAAAUGUUGCCGUCAAUUCUGCACAAAAUAUGCAUAAAUACGGGCAUAAAUAAAUGUCUGGAUGGGCUCU--CACACACUCGCACGCUCA--CACAAACAAGCACGCGGAUUCGCA
.(((((.......(((((.....((((.......))))......(((((((......)))))))))))).....--.......((((..(((..--........)))..)))).))))). ( -28.40)
>DroSim_CAF1 3168 100 + 1
UGCGAAUAUGUUGCCGUCAAUUCUGCACAAAAUAUGCAUAAAUACGGGCAUAAAUAAGUGUCUGGAUGGGCUCU--CA------------------CACAAGCAAGCACACGGAUUCGCA
.((((((.((((((((((.....((((.......))))......(((((((......))))))))))).(((..--..------------------....)))..))).))).)))))). ( -28.40)
>consensus
UGCGAAAAUGUUGCCGUCAAUUCUGCACAAAAUAUGCAUAAAUACGGGCAUAAAUAAAUGUCUGGAUGGGCUCU__CACACACUCGCACGCUC___CACAAACAAGCACACGGAUUCGCA
.(((((..(((..(((((.....((((.......))))......(((((((......))))))))))))(((................................)))..)))..))))). (-25.02 = -24.58 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,171,322 – 20,171,442
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.17
Mean single sequence MFE -39.40
Consensus MFE -24.30
Energy contribution -24.63
Covariance contribution 0.34
Combinations/Pair 1.07
Mean z-score -2.44
Structure conservation index 0.62
SVM decision value 1.99
SVM RNA-class probability 0.984968
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20171322 120 + 22224390
CACUCGCACGCUCGCACAUAAACAAGCACACGGAUUCGCACUCAAAACCCAACUGUGUGGGUGAGUGACUGACUCUGCAUGUCGGUAUGCCUGCAUGGCUGUAUGUAUGUGUGUAUGGGC
..((((.((((.((.(((((....(((...((((.((.(((((...(((((......))))))))))...)).))))(((((.((....)).)))))))).))))).)).)))).)))). ( -42.00)
>DroSec_CAF1 2946 106 + 1
CACUCGCACGCUCA--CACAAACAAGCACGCGGAUUCGCACUCAAAACCCAACUGCGUGGGU----UACUGACUCUGCCUGUCUGUGUGCCUGCAUGGUUGUAUGU--------GUGGGC
.........(((((--((((.((((((((((((((..(((.(((.((((((......)))))----)..)))...)))..))))))))))((....)))))).)))--------)))))) ( -42.90)
>DroSim_CAF1 3244 92 + 1
----------------CACAAGCAAGCACACGGAUUCGCACUCAAAACCCAACUGUGUGGGU----UACUGACUCUGCCUUUCUGUGUGCCUGCAUGGCUGUAUGU--------GUGGGC
----------------(((..(((.(((((((((...(((.(((.((((((......)))))----)..)))...)))...))))))))).)))...((.....))--------)))... ( -33.30)
>consensus
CACUCGCACGCUC___CACAAACAAGCACACGGAUUCGCACUCAAAACCCAACUGUGUGGGU____UACUGACUCUGCCUGUCUGUGUGCCUGCAUGGCUGUAUGU________GUGGGC
................(((......((((((((((..(((.(((..(((((......))))).......)))...)))..))))))))))..(((((....)))))........)))... (-24.30 = -24.63 +   0.34)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,171,322 – 20,171,442
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.17
Mean single sequence MFE -36.73
Consensus MFE -24.69
Energy contribution -24.37
Covariance contribution -0.33
Combinations/Pair 1.11
Mean z-score -1.58
Structure conservation index 0.67
SVM decision value 0.43
SVM RNA-class probability 0.731881
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20171322 120 - 22224390
GCCCAUACACACAUACAUACAGCCAUGCAGGCAUACCGACAUGCAGAGUCAGUCACUCACCCACACAGUUGGGUUUUGAGUGCGAAUCCGUGUGCUUGUUUAUGUGCGAGCGUGCGAGUG
.........(((.........((.(((..((....))..))))).((.((.(.((((((((((......)))))...)))))))).))((..(((((((......)))))))..)).))) ( -35.60)
>DroSec_CAF1 2946 106 - 1
GCCCAC--------ACAUACAACCAUGCAGGCACACAGACAGGCAGAGUCAGUA----ACCCACGCAGUUGGGUUUUGAGUGCGAAUCCGCGUGCUUGUUUGUG--UGAGCGUGCGAGUG
......--------........((((((...((((((((((((((.(.((((.(----(((((......)))))))))).)(((....))).))))))))))))--)).))))).).... ( -42.40)
>DroSim_CAF1 3244 92 - 1
GCCCAC--------ACAUACAGCCAUGCAGGCACACAGAAAGGCAGAGUCAGUA----ACCCACACAGUUGGGUUUUGAGUGCGAAUCCGUGUGCUUGCUUGUG----------------
.....(--------(((.........((((((((((.((...(((...((((.(----(((((......)))))))))).)))...)).)))))))))).))))---------------- ( -32.20)
>consensus
GCCCAC________ACAUACAGCCAUGCAGGCACACAGACAGGCAGAGUCAGUA____ACCCACACAGUUGGGUUUUGAGUGCGAAUCCGUGUGCUUGUUUGUG___GAGCGUGCGAGUG
.......................(((((((((((((.((...(((...((((......(((((......))))).)))).)))...)).))))))))))..)))................ (-24.69 = -24.37 +  -0.33)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:37 2006