Locus 6749

Sequence ID 2L_DroMel_CAF1
Location 18,849,112 – 18,849,232
Length 120
Max. P 0.983938
window10777 window10778

overview

Window 7

Location 18,849,112 – 18,849,232
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 87.83
Mean single sequence MFE -53.28
Consensus MFE -43.79
Energy contribution -44.02
Covariance contribution 0.22
Combinations/Pair 1.11
Mean z-score -3.78
Structure conservation index 0.82
SVM decision value 1.96
SVM RNA-class probability 0.983938
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18849112 120 + 22407834
GACGAGAUUCGGGAGCUGGAGCUGGAGCCGGUCUGCUGUCAGCUGGACGAUGAGCAGGACUUUGAAAUAGCUGGCAGCAGGGCCGGCGAGCUCUCCCACUCGCACUCGCACUCGCUGUCC
((((((...((((.(..((((((...(((((((((((((((((((......(((.....))).....)))))))))))).))))))).))))))..).))))..)))((....)).))). ( -56.60)
>DroVir_CAF1 73 102 + 1
GACGAGAUACGUGAGCUGGAGCUGGAGCCGGUCUGCUGUCAGCUGGACGAUGAGCAGGACUUUGAAAUAGCUGGCAGCAGGGCCGGCGAGCUC------------------UCGCUCUCA
..........(.((((.((((((...(((((((((((((((((((......(((.....))).....)))))))))))).))))))).)))))------------------).)))).). ( -54.20)
>DroGri_CAF1 73 102 + 1
GACGAGAUACGUGAGCUGGAGCUGGAGCCGGUCUGCUGUCAGCUGGACGAUGAGCAGGACUUUGAAAUAGCUGGCAGCAGGGCCGGUGAGCUC------------------UCGCUCUCA
..........(.((((.((((((...(((((((((((((((((((......(((.....))).....)))))))))))).))))))).)))))------------------).)))).). ( -52.60)
>DroWil_CAF1 73 102 + 1
GACGAGAUACGUGAGCUGGAGCUGGAACCGGUCUGCUGUCAGCUGGACGAUGAGCAGGACUUUGAAAUAGCUGGCAGCAGAGCCGGUGAGCUC------------------UCGCUAUCC
.(((.....))).(((.((((((...(((((((((((((((((((......(((.....))).....)))))))))))))).))))).)))))------------------).))).... ( -49.50)
>DroAna_CAF1 73 120 + 1
GACGAGAUACGGGAGUUGGAGCUGGAGCCGGUCUGCUGUCAGCUGGACGAUGAGCAGGACUUUGAGAUAGCUGGCAGCAGGGCCGGCGAGCUCUCCCACUCGCAUUCGCACUCGCUGUCC
..((((....((((....(((((...(((((((((((((((((((..(...(((.....)))...).)))))))))))).))))))).)))))))))....((....)).))))...... ( -56.00)
>DroPer_CAF1 11851 102 + 1
GACGAGAUACGUGAGCUGGAGCUGGAGCCGGUCUGCUGUCAGCUGGACGAUGAGCAGGACUUUGAAAUAGCUGGCAGCAGGGCCGGCGAGCUC------------------UCGCUAUCC
.(((.....))).(((.((((((...(((((((((((((((((((......(((.....))).....)))))))))))).))))))).)))))------------------).))).... ( -50.80)
>consensus
GACGAGAUACGUGAGCUGGAGCUGGAGCCGGUCUGCUGUCAGCUGGACGAUGAGCAGGACUUUGAAAUAGCUGGCAGCAGGGCCGGCGAGCUC__________________UCGCUAUCC
.....((((.((((....(((((...(((((((((((((((((((......(((.....))).....)))))))))))))).))))).)))))..................)))))))). (-43.79 = -44.02 +   0.22)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,849,112 – 18,849,232
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 87.83
Mean single sequence MFE -41.66
Consensus MFE -32.34
Energy contribution -32.34
Covariance contribution 0.00
Combinations/Pair 1.07
Mean z-score -2.41
Structure conservation index 0.78
SVM decision value 0.12
SVM RNA-class probability 0.594930
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18849112 120 - 22407834
GGACAGCGAGUGCGAGUGCGAGUGGGAGAGCUCGCCGGCCCUGCUGCCAGCUAUUUCAAAGUCCUGCUCAUCGUCCAGCUGACAGCAGACCGGCUCCAGCUCCAGCUCCCGAAUCUCGUC
.....(((((..((.(...((((.((((.....(((((..((((((.(((((.......((.....))........))))).)))))).))))).....)))).)))))))...))))). ( -45.46)
>DroVir_CAF1 73 102 - 1
UGAGAGCGA------------------GAGCUCGCCGGCCCUGCUGCCAGCUAUUUCAAAGUCCUGCUCAUCGUCCAGCUGACAGCAGACCGGCUCCAGCUCCAGCUCACGUAUCUCGUC
...((((..------------------(((((.(((((..((((((.(((((.......((.....))........))))).)))))).)))))...)))))..))))(((.....))). ( -42.26)
>DroGri_CAF1 73 102 - 1
UGAGAGCGA------------------GAGCUCACCGGCCCUGCUGCCAGCUAUUUCAAAGUCCUGCUCAUCGUCCAGCUGACAGCAGACCGGCUCCAGCUCCAGCUCACGUAUCUCGUC
...((((..------------------(((((..((((..((((((.(((((.......((.....))........))))).)))))).))))....)))))..))))(((.....))). ( -38.56)
>DroWil_CAF1 73 102 - 1
GGAUAGCGA------------------GAGCUCACCGGCUCUGCUGCCAGCUAUUUCAAAGUCCUGCUCAUCGUCCAGCUGACAGCAGACCGGUUCCAGCUCCAGCUCACGUAUCUCGUC
(((((((..------------------(((((.(((((.(((((((.(((((.......((.....))........))))).))))))))))))...)))))..))).....)))).... ( -38.36)
>DroAna_CAF1 73 120 - 1
GGACAGCGAGUGCGAAUGCGAGUGGGAGAGCUCGCCGGCCCUGCUGCCAGCUAUCUCAAAGUCCUGCUCAUCGUCCAGCUGACAGCAGACCGGCUCCAGCUCCAACUCCCGUAUCUCGUC
.....(((((((((...(.((((.((((.....(((((..((((((.(((((.......((.....))........))))).)))))).))))).....)))).))))))))).))))). ( -47.56)
>DroPer_CAF1 11851 102 - 1
GGAUAGCGA------------------GAGCUCGCCGGCCCUGCUGCCAGCUAUUUCAAAGUCCUGCUCAUCGUCCAGCUGACAGCAGACCGGCUCCAGCUCCAGCUCACGUAUCUCGUC
(((((((..------------------(((((.(((((..((((((.(((((.......((.....))........))))).)))))).)))))...)))))..))).....)))).... ( -37.76)
>consensus
GGACAGCGA__________________GAGCUCGCCGGCCCUGCUGCCAGCUAUUUCAAAGUCCUGCUCAUCGUCCAGCUGACAGCAGACCGGCUCCAGCUCCAGCUCACGUAUCUCGUC
.....((((..................(((((.(((((..((((((.(((((.......((.....))........))))).)))))).)))))...)))))..((....))...)))). (-32.34 = -32.34 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:04 2006