Locus 5758

Sequence ID 3L_DroMel_CAF1
Location 15,632,255 – 15,632,415
Length 160
Max. P 0.896872
window9139 window9140 window9141

overview

Window 9

Location 15,632,255 – 15,632,375
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.58
Mean single sequence MFE -26.93
Consensus MFE -23.48
Energy contribution -22.97
Covariance contribution -0.50
Combinations/Pair 1.10
Mean z-score -1.74
Structure conservation index 0.87
SVM decision value 0.43
SVM RNA-class probability 0.733557
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15632255 120 + 23771897
AUAAGCUGACCCAGUUUUGGAUUCAUAUUUUGAUACAAAUUGGUUGCAACAUAUCCUGAAAGUCAAACUUUCUGGACCGCUUCAGAUAACCACAAUUAAAUGGCAACAUAAUAUUGGGCA
..((((((..(((((((.(...(((.....)))..))))))))...)).....(((.(((((.....))))).)))..)))).......((.((((...(((....)))...)))))).. ( -26.50)
>DroSec_CAF1 54505 120 + 1
AUAAGCUGACCCAGUUUUGGAUUCAUAUUUUGAUACAAAUUGGUUGCAACAUUUCCUGAAAGUCAAACUUUCUGGCCUGUGUCAGAUUACCACAAUUAAAUGGCAACCUAAUAUUGGGCA
.......(.((((((((((...(((.....)))..))))..((((((..(((((((.(((((.....))))).))..((((.........))))...)))))))))))....))))))). ( -28.10)
>DroSim_CAF1 55461 120 + 1
AUAAGCUGACCCAGUUUUGGAUUCAUAUUUUGAUACAAAUUGGUUGCAACAUUUCCUGAAAGUCAAACUUUUUGGCCUUCGUCAGAUUACUACAAUUAAAUGGCAACCUAAUAUUGGGCA
.......(.((((((((((...(((.....)))..))))..((((((..(((((...(((.(((((.....))))).)))((.((....))))....)))))))))))....))))))). ( -25.60)
>DroYak_CAF1 59145 120 + 1
AUAAGCUGACCCAGUUUUGGAUUCAUAUCUUGAUACAAAUUGGUUGCAACAUUUCAUGAAAGUCAAACUUUCUGGGCUGCUUCAGAUUACCACAAUUAAAUGGCAACCUAAUAUUGGGCA
.......(.((((((((((...(((.....)))..))))..((((((..(((((.(((((((.....)))))(((.(((...)))....)))..)).)))))))))))....))))))). ( -27.50)
>consensus
AUAAGCUGACCCAGUUUUGGAUUCAUAUUUUGAUACAAAUUGGUUGCAACAUUUCCUGAAAGUCAAACUUUCUGGCCUGCGUCAGAUUACCACAAUUAAAUGGCAACCUAAUAUUGGGCA
.......(.((((((((((...(((.....)))..))))..((((((..........(((((.....)))))((((....))))..................))))))....))))))). (-23.48 = -22.97 +  -0.50)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,632,255 – 15,632,375
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 94.58
Mean single sequence MFE -29.62
Consensus MFE -26.10
Energy contribution -26.85
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.88
SVM decision value 0.99
SVM RNA-class probability 0.896872
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15632255 120 - 23771897
UGCCCAAUAUUAUGUUGCCAUUUAAUUGUGGUUAUCUGAAGCGGUCCAGAAAGUUUGACUUUCAGGAUAUGUUGCAACCAAUUUGUAUCAAAAUAUGAAUCCAAAACUGGGUCAGCUUAU
.(((((((...(((....)))...)))).)))......(((((..((((((((.....))))).((((....(((((.....)))))(((.....))))))).....)))..).)))).. ( -26.30)
>DroSec_CAF1 54505 120 - 1
UGCCCAAUAUUAGGUUGCCAUUUAAUUGUGGUAAUCUGACACAGGCCAGAAAGUUUGACUUUCAGGAAAUGUUGCAACCAAUUUGUAUCAAAAUAUGAAUCCAAAACUGGGUCAGCUUAU
.((......((((((((((((......))))))))))))....((((....(((((....((((.....((.(((((.....))))).)).....))))....))))).)))).)).... ( -31.60)
>DroSim_CAF1 55461 120 - 1
UGCCCAAUAUUAGGUUGCCAUUUAAUUGUAGUAAUCUGACGAAGGCCAAAAAGUUUGACUUUCAGGAAAUGUUGCAACCAAUUUGUAUCAAAAUAUGAAUCCAAAACUGGGUCAGCUUAU
.((......(((((((((.((......)).)))))))))....((((....(((((....((((.....((.(((((.....))))).)).....))))....))))).)))).)).... ( -25.10)
>DroYak_CAF1 59145 120 - 1
UGCCCAAUAUUAGGUUGCCAUUUAAUUGUGGUAAUCUGAAGCAGCCCAGAAAGUUUGACUUUCAUGAAAUGUUGCAACCAAUUUGUAUCAAGAUAUGAAUCCAAAACUGGGUCAGCUUAU
..........(((((((((((......)))))))))))((((.((((((....((((...((((((...((.(((((.....))))).))...))))))..)))).))))))..)))).. ( -35.50)
>consensus
UGCCCAAUAUUAGGUUGCCAUUUAAUUGUGGUAAUCUGAAGCAGGCCAGAAAGUUUGACUUUCAGGAAAUGUUGCAACCAAUUUGUAUCAAAAUAUGAAUCCAAAACUGGGUCAGCUUAU
.((((....((((((((((((......))))))))))))............(((((....((((.....((.(((((.....))))).)).....))))....)))))))))........ (-26.10 = -26.85 +   0.75)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,632,295 – 15,632,415
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.75
Mean single sequence MFE -30.73
Consensus MFE -27.59
Energy contribution -28.15
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -1.83
Structure conservation index 0.90
SVM decision value 0.87
SVM RNA-class probability 0.870490
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15632295 120 - 23771897
CGGAACAAAGGGGAGUUUAAACUUUUAAGUGGAAGAGAAUUGCCCAAUAUUAUGUUGCCAUUUAAUUGUGGUUAUCUGAAGCGGUCCAGAAAGUUUGACUUUCAGGAUAUGUUGCAACCA
.(.((((..(((.(((((...(((((....))))).))))).)))....(((.((.(((((......))))).)).)))....((((.(((((.....))))).)))).)))).)..... ( -28.60)
>DroSec_CAF1 54545 120 - 1
CGGAACAAAGGGGAGUUUAAACUUUUAAGUGGAAGAGAAUUGCCCAAUAUUAGGUUGCCAUUUAAUUGUGGUAAUCUGACACAGGCCAGAAAGUUUGACUUUCAGGAAAUGUUGCAACCA
.((......(((.(((((...(((((....))))).))))).)))....((((((((((((......)))))))))))).(((..((.(((((.....))))).))...))).....)). ( -34.30)
>DroSim_CAF1 55501 120 - 1
CGGAACAAAGGGGAGUUUAAACUUUUAAGUGGAAGAGAAUUGCCCAAUAUUAGGUUGCCAUUUAAUUGUAGUAAUCUGACGAAGGCCAAAAAGUUUGACUUUCAGGAAAUGUUGCAACCA
.(.((((..(((.(((((...(((((....))))).))))).)))....(((((((((.((......)).))))))))).(((((.(((.....))).)))))......)))).)..... ( -26.80)
>DroYak_CAF1 59185 120 - 1
CGGAACAAAAGGGAGCUUAAACUUUUAAGUGGAACAGAAUUGCCCAAUAUUAGGUUGCCAUUUAAUUGUGGUAAUCUGAAGCAGCCCAGAAAGUUUGACUUUCAUGAAAUGUUGCAACCA
.((.......(((.((((((....))))))............)))....((((((((((((......)))))))))))).(((((.(((((((.....))))).))....)))))..)). ( -33.22)
>consensus
CGGAACAAAGGGGAGUUUAAACUUUUAAGUGGAAGAGAAUUGCCCAAUAUUAGGUUGCCAUUUAAUUGUGGUAAUCUGAAGCAGGCCAGAAAGUUUGACUUUCAGGAAAUGUUGCAACCA
.(.((((...(..((.((((((((((...(((...........)))...((((((((((((......)))))))))))).........))))))))))))..)......)))).)..... (-27.59 = -28.15 +   0.56)

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 11:59:04 2006