Locus 2111

Sequence ID 2R_DroMel_CAF1
Location 7,914,410 – 7,914,570
Length 160
Max. P 0.855023
window3498 window3499

overview

Window 8

Location 7,914,410 – 7,914,530
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.83
Mean single sequence MFE -34.20
Consensus MFE -25.62
Energy contribution -25.62
Covariance contribution -0.00
Combinations/Pair 1.23
Mean z-score -2.07
Structure conservation index 0.75
SVM decision value 0.80
SVM RNA-class probability 0.855023
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7914410 120 - 20766785
GUUGUUGUGGUAAACCAUAACCUUGGUUGGGAUGCGGAUAUCUCGAGUUCGUACCCAAAUAUACAAUGUGGUAUUUGACUUUAGAAAUAUAUUUUCUGGAUCCUGCAUGAUUUCAAUAUG
...(((((((....))))))).(((((((((.(((((((.......)))))))))))).......(((..(.....((.((((((((.....)))))))))))..)))....)))).... ( -30.00)
>DroSec_CAF1 11315 120 - 1
AUUGUUGUGGUAAACCAUAACCUUGGUUGGGAUGCGGAUGUCACGAGUUCGUACCCAAAUAUAAAGCGUGGUAUUGGGCUUUAGAAAUAUAUUUUCUGGAUCCUGUUUGAUUGCAAUAUG
..(((((..((..(((((...(((..(((((.(((((((.......)))))))))))).....))).)))))...(((.((((((((.....)))))))).))).....))..))))).. ( -35.50)
>DroSim_CAF1 12279 120 - 1
AUUGUUGUGGUAAACCAUAACCUUGGUUGGGAUGCGAAUAUCACGAGUUCGUACCCAAAUAUAAAGCGUGGUAUUGGGCUUUAGAAAUAUAUUUUCUGGAUCCUGUUUGAUUGCAAUAUG
..(((((..((..(((((...(((..(((((.(((((((.......)))))))))))).....))).)))))...(((.((((((((.....)))))))).))).....))..))))).. ( -35.70)
>DroEre_CAF1 11046 120 - 1
GUUGUUGUGGGAAACCAUAAUCGUAGUUGGGAUGCGGAUAUCUCGAGUUCGUACCCAAAUAUACAGUGUGCUAUUAGACUUCAGAAUUAUAUGUUCGGGAUCCUGCAUGAUUGUUAUAUG
...(((((((....))))))).....(((((.(((((((.......))))))))))))(((((((((((((.....((.(((.((((.....)))).)))))..)))).)))).))))). ( -33.80)
>DroYak_CAF1 13918 120 - 1
GUUGUUGUGGGAAACCAUUACCGUGGUUGGGAUGCGGAUAUCUCGAGUUCGUACCCAAAUAUAUAGUGUCGUAUUCGUCUUGAGAAAUAUGUGUUCAGGAUCCUGCAAGAUUGCGAUAUG
...((.((((....)))).)).(((.(((((.(((((((.......)))))))))))).)))...((((((((.((((((((((.........)))))))).......)).)))))))). ( -36.01)
>consensus
GUUGUUGUGGUAAACCAUAACCUUGGUUGGGAUGCGGAUAUCUCGAGUUCGUACCCAAAUAUAAAGUGUGGUAUUGGACUUUAGAAAUAUAUUUUCUGGAUCCUGCAUGAUUGCAAUAUG
...(((((((....))))))).(((.(((((.(((((((.......))))))))))))...)))...............((((((((.....)))))))).................... (-25.62 = -25.62 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,914,450 – 7,914,570
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.08
Mean single sequence MFE -39.82
Consensus MFE -32.84
Energy contribution -32.72
Covariance contribution -0.12
Combinations/Pair 1.12
Mean z-score -1.34
Structure conservation index 0.82
SVM decision value -0.04
SVM RNA-class probability 0.514479
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7914450 120 - 20766785
CCUCGAUGCGGCGGAGGAACCACAUCGGAAAUCGCCCGGCGUUGUUGUGGUAAACCAUAACCUUGGUUGGGAUGCGGAUAUCUCGAGUUCGUACCCAAAUAUACAAUGUGGUAUUUGACU
((((.........)))).((((((((((.......))).((..(((((((....)))))))..)).(((((.(((((((.......)))))))))))).......)))))))........ ( -37.50)
>DroSec_CAF1 11355 120 - 1
CCUCGAUGCGGCGAAGGAACCACCUCGGAAAUCGCCCGGCAUUGUUGUGGUAAACCAUAACCUUGGUUGGGAUGCGGAUGUCACGAGUUCGUACCCAAAUAUAAAGCGUGGUAUUGGGCU
.((((((((.(((....(((((..((((.......))))....(((((((....)))))))..)))))(((.(((((((.......))))))))))..........))).)))))))).. ( -41.50)
>DroSim_CAF1 12319 120 - 1
CCUCGAUGCGGCGAAGGAACCACCUCGGAAAUCGCCCGGCAUUGUUGUGGUAAACCAUAACCUUGGUUGGGAUGCGAAUAUCACGAGUUCGUACCCAAAUAUAAAGCGUGGUAUUGGGCU
.((((((((.(((....(((((..((((.......))))....(((((((....)))))))..)))))(((.(((((((.......))))))))))..........))).)))))))).. ( -41.70)
>DroEre_CAF1 11086 120 - 1
ACUCGAUGCGGCGAAGGAACCAUUUUGGAAAUCGUCCGGCGUUGUUGUGGGAAACCAUAAUCGUAGUUGGGAUGCGGAUAUCUCGAGUUCGUACCCAAAUAUACAGUGUGCUAUUAGACU
...(((((((((((.....((.....))...))).)).))))))((((((....))))))..(((.(((((.(((((((.......))))))))))))...)))(((.((....)).))) ( -36.60)
>DroYak_CAF1 13958 120 - 1
CUUCGAUGCGGCGCAGGAACCAUUUCGGAAACCGGCCGGCGUUGUUGUGGGAAACCAUUACCGUGGUUGGGAUGCGGAUAUCUCGAGUUCGUACCCAAAUAUAUAGUGUCGUAUUCGUCU
...(((((((((((...((((((.((((.......))))....((.((((....)))).)).))))))(((.(((((((.......)))))))))).........)))))))).)))... ( -41.80)
>consensus
CCUCGAUGCGGCGAAGGAACCACCUCGGAAAUCGCCCGGCGUUGUUGUGGUAAACCAUAACCUUGGUUGGGAUGCGGAUAUCUCGAGUUCGUACCCAAAUAUAAAGUGUGGUAUUGGACU
....(((((.(((....(((((..((((.......))))....(((((((....)))))))..)))))(((.(((((((.......))))))))))..........))).)))))..... (-32.84 = -32.72 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:36 2006