Locus 2886

Sequence ID X_DroMel_CAF1
Location 7,709,544 – 7,709,690
Length 146
Max. P 0.893158
window4728 window4729

overview

Window 8

Location 7,709,544 – 7,709,664
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -39.31
Consensus MFE -36.23
Energy contribution -37.23
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.92
SVM decision value 0.98
SVM RNA-class probability 0.893158
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7709544 120 - 22224390
CCCGCCGCACACAUAGACAUCAAUUUUGUGUGUGCUUCUUGCCGGCAAUCCUUGCAACAUUUGCGGCUGCCGUUGUCGCCAUCGACUGGUUGGUUACAUGUAAGUGCUGCCAUUGCCCCC
......(((((((((((.......)))))))))))........((((((....(((.((((((((...((((..((((....))))....))))....)))))))).))).))))))... ( -40.90)
>DroSim_CAF1 17394 120 - 1
CCCGCCGCACACAUAGACAUCAAUUUUGUGUGUGCUUCUUGCCGGCAAUCCUUGCAACAUUUGCGGCUGCCGUUGUCGCCAUCGACUGGUUGGUUACAUGUAAGUGCUGCCAUUGCCCCC
......(((((((((((.......)))))))))))........((((((....(((.((((((((...((((..((((....))))....))))....)))))))).))).))))))... ( -40.90)
>DroEre_CAF1 7135 116 - 1
CCCGCCACACACAUAGACAUCAAUUUUGUGUGUGCUUCUUGCCGGCAAUCCUUGCAACAUUUGCGGCUGCCGUUGUCGCCAUCGACUG----GUUACAUGUAAGUGCUGCCAUUGCCCCC
...((.(((((((.............)))))))))........((((((....(((.((((((((...((((..((((....))))))----))....)))))))).))).))))))... ( -36.12)
>consensus
CCCGCCGCACACAUAGACAUCAAUUUUGUGUGUGCUUCUUGCCGGCAAUCCUUGCAACAUUUGCGGCUGCCGUUGUCGCCAUCGACUGGUUGGUUACAUGUAAGUGCUGCCAUUGCCCCC
......(((((((((((.......)))))))))))........((((((....(((.((((((((...((((..((((....))))....))))....)))))))).))).))))))... (-36.23 = -37.23 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 7,709,584 – 7,709,690
Length 106
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.71
Mean single sequence MFE -24.77
Consensus MFE -22.97
Energy contribution -23.30
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.47
Structure conservation index 0.93
SVM decision value 0.57
SVM RNA-class probability 0.786995
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7709584 106 - 22224390
AAACC---GAA-CUCCGAAACCCC----------AAUCCACCCGCCGCACACAUAGACAUCAAUUUUGUGUGUGCUUCUUGCCGGCAAUCCUUGCAACAUUUGCGGCUGCCGUUGUCGCC
.....---...-...(((......----------............(((((((((((.......))))))))))).......(((((..(...(((.....))))..)))))...))).. ( -25.50)
>DroSim_CAF1 17434 106 - 1
AAACU---GAA-CUCCGAAACCCC----------AAUCCACCCGCCGCACACAUAGACAUCAAUUUUGUGUGUGCUUCUUGCCGGCAAUCCUUGCAACAUUUGCGGCUGCCGUUGUCGCC
.....---...-...(((......----------............(((((((((((.......))))))))))).......(((((..(...(((.....))))..)))))...))).. ( -25.50)
>DroEre_CAF1 7171 120 - 1
AAACCCCCAAACCCCCAAAACCCCCAAAAACCGCCCCCAACCCGCCACACACAUAGACAUCAAUUUUGUGUGUGCUUCUUGCCGGCAAUCCUUGCAACAUUUGCGGCUGCCGUUGUCGCC
................................(((..(((...((.(((((((.............)))))))))...)))..)))................(((((.......))))). ( -23.32)
>consensus
AAACC___GAA_CUCCGAAACCCC__________AAUCCACCCGCCGCACACAUAGACAUCAAUUUUGUGUGUGCUUCUUGCCGGCAAUCCUUGCAACAUUUGCGGCUGCCGUUGUCGCC
...........................................((.(((((((((((.......))))))))))).......(((((..(...(((.....))))..))))).....)). (-22.97 = -23.30 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:50 2006