Locus 7426

Sequence ID X_DroMel_CAF1
Location 18,536,373 – 18,536,507
Length 134
Max. P 0.960280
window12175 window12176 window12177

overview

Window 5

Location 18,536,373 – 18,536,474
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 98.02
Mean single sequence MFE -34.67
Consensus MFE -34.09
Energy contribution -34.21
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.37
Structure conservation index 0.98
SVM decision value 1.51
SVM RNA-class probability 0.960280
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18536373 101 + 22224390
AAAGUGCUGGACACAGCACUUUGUGUCUGAUUGCACUCGUCGUGUUCGUGGGCAGACCAAGUAUUUUUAGCUUUGAACUUGGACUCGGUAAUAUGAGGCAC
(((((((((....)))))))))((((((.(((((.((((.((....))))))....((((((..............)))))).....)))))...)))))) ( -31.54)
>DroSec_CAF1 1381 101 + 1
AAAGUGCUGGACACAGCACUUUGUGUCUGAUUGCACUCGUUGUGUUCGUGGGCAGACCAAGUAUUUUUAGCUUUGAACUUGGACUCGGUAAUCCGAGGCAC
(((((((((....))))))))).((((((...((((.....))))...))))))..((((((..............)))))).(((((....))))).... ( -36.54)
>DroSim_CAF1 1424 101 + 1
AAAGUGCUGGACACAGCACUUUGUGUCUGAUUGCACUCGUCGUGUUCGUGGGCAGACCAAGUAUUUUUAGCUUUGAACUUGGACUCGGUAAUCCGAGGCAC
(((((((((....))))))))).((((((...((((.....))))...))))))..((((((..............)))))).(((((....))))).... ( -35.94)
>consensus
AAAGUGCUGGACACAGCACUUUGUGUCUGAUUGCACUCGUCGUGUUCGUGGGCAGACCAAGUAUUUUUAGCUUUGAACUUGGACUCGGUAAUCCGAGGCAC
(((((((((....))))))))).((((((...((((.....))))...))))))..((((((..............)))))).(((((....))))).... (-34.09 = -34.21 +   0.11)

alignment

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secondary structure

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dotplot

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Window 6

Location 18,536,373 – 18,536,474
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 98.02
Mean single sequence MFE -27.57
Consensus MFE -25.51
Energy contribution -26.17
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.93
SVM decision value 0.35
SVM RNA-class probability 0.702210
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18536373 101 - 22224390
GUGCCUCAUAUUACCGAGUCCAAGUUCAAAGCUAAAAAUACUUGGUCUGCCCACGAACACGACGAGUGCAAUCAGACACAAAGUGCUGUGUCCAGCACUUU
.((((((.........((.((((((..............)))))).)).....((....))..))).))).........(((((((((....))))))))) ( -25.84)
>DroSec_CAF1 1381 101 - 1
GUGCCUCGGAUUACCGAGUCCAAGUUCAAAGCUAAAAAUACUUGGUCUGCCCACGAACACAACGAGUGCAAUCAGACACAAAGUGCUGUGUCCAGCACUUU
(((.(((((....))))).((((((..............))))))((((..(((...........)))....)))))))(((((((((....))))))))) ( -28.44)
>DroSim_CAF1 1424 101 - 1
GUGCCUCGGAUUACCGAGUCCAAGUUCAAAGCUAAAAAUACUUGGUCUGCCCACGAACACGACGAGUGCAAUCAGACACAAAGUGCUGUGUCCAGCACUUU
(((.(((((....))))).((((((..............))))))((((..(((...........)))....)))))))(((((((((....))))))))) ( -28.44)
>consensus
GUGCCUCGGAUUACCGAGUCCAAGUUCAAAGCUAAAAAUACUUGGUCUGCCCACGAACACGACGAGUGCAAUCAGACACAAAGUGCUGUGUCCAGCACUUU
(((.(((((....))))).((((((..............))))))((((..(((...........)))....)))))))(((((((((....))))))))) (-25.51 = -26.17 +   0.67)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,536,394 – 18,536,507
Length 113
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 97.64
Mean single sequence MFE -31.67
Consensus MFE -29.61
Energy contribution -30.27
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.93
SVM decision value -0.01
SVM RNA-class probability 0.530440
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18536394 113 - 22224390
AACAGAUAGUGGCAGCACCGAGAUUGCAUGUGGGUGCCUCAUAUUACCGAGUCCAAGUUCAAAGCUAAAAAUACUUGGUCUGCCCACGAACACGACGAGUGCAAUCAGACACA
........(((....)))...((((((((((((((..(((........))).((((((..............))))))...))))))(....).....))))))))....... ( -27.24)
>DroSec_CAF1 1402 113 - 1
AACAGAUAGUGGCAGCACCCAGAUUGCAUGUGGGUGCCUCGGAUUACCGAGUCCAAGUUCAAAGCUAAAAAUACUUGGUCUGCCCACGAACACAACGAGUGCAAUCAGACACA
....(((.(((((((((((((.((...)).)))))))(((((....))))).((((((..............))))))..)).))))...(((.....)))..)))....... ( -33.54)
>DroSim_CAF1 1445 113 - 1
AACAGAUAGUGGCAGCACCCAGAUUGCAUGUGGGUGCCUCGGAUUACCGAGUCCAAGUUCAAAGCUAAAAAUACUUGGUCUGCCCACGAACACGACGAGUGCAAUCAGACACA
....(((.(((((((((((((.((...)).)))))))(((((....))))).((((((..............))))))..)).))))...(((.....)))..)))....... ( -34.24)
>consensus
AACAGAUAGUGGCAGCACCCAGAUUGCAUGUGGGUGCCUCGGAUUACCGAGUCCAAGUUCAAAGCUAAAAAUACUUGGUCUGCCCACGAACACGACGAGUGCAAUCAGACACA
........(((....)))...((((((((((((((..(((((....))))).((((((..............))))))...))))))(....).....))))))))....... (-29.61 = -30.27 +   0.67)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:37 2006