Locus 6142

Sequence ID 3R_DroMel_CAF1
Location 16,090,702 – 16,090,796
Length 94
Max. P 0.595590
window10013 window10014

overview

Window 3

Location 16,090,702 – 16,090,796
Length 94
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 82.43
Mean single sequence MFE -17.18
Consensus MFE -9.73
Energy contribution -10.65
Covariance contribution 0.92
Combinations/Pair 1.18
Mean z-score -2.39
Structure conservation index 0.57
SVM decision value 0.11
SVM RNA-class probability 0.589575
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16090702 94 + 27905053
------GGUGCCUGUCUGCCUGACUGAAAUACCAAUCAACUCACUUCAAUUAUGCGACAUCGCACGAUAAACGGCACAAAAGAAAUAACUAUAUAAAUAA
------.(((((.(((.....)))........................((..((((....))))..))....)))))....................... ( -18.10)
>DroSec_CAF1 47780 90 + 1
------GGUGCCU----GCCUGACUGAAAUACCAAUCAACUCACUUCAAUUAUGCGACAUCGCACGAUAAACGGCACAAAAGAAAUAACUAUAUAAAUAU
------.(((((.----...(((.((......)).)))..........((..((((....))))..))....)))))....................... ( -17.30)
>DroSim_CAF1 53871 90 + 1
------GGUGCCU----GCCUGACUGAAAUACCAAUCAACUCACUUCAAUUAUGCGACAUCGCACGAUAAACGGCACAAAAGAAAUAACUAUAUAAAUAU
------.(((((.----...(((.((......)).)))..........((..((((....))))..))....)))))....................... ( -17.30)
>DroEre_CAF1 23285 90 + 1
------GGUGCCU----GCCUGACUGAAAUACAAAUCAACUCACUUCAAUUAUGCGACAUCGCACGAUAAACGGCACAAAAGAAAUAACUAUAUAAAUAA
------.(((((.----...(((.(((........)))..))).....((..((((....))))..))....)))))....................... ( -16.00)
>DroWil_CAF1 2995 85 + 1
CAAGGUGGUAUGU----AUCUGAAUGAAAUACAAAUCGGCUUACUUCAAUUAAACGGCAUGG----------GGGCCAUAAUAAAUAAGCCAA-AAAUAA
......(((.(((----(((.....))..)))).)))((((((.((..((((...(((....----------..))).)))))).))))))..-...... ( -14.50)
>DroYak_CAF1 66536 90 + 1
------GGUGCCU----GCCUGACUGAAAUACCAAUCAAAUCACUUCAAUUUUGCGACAUCGCACGAUAAACGGCACCAAAGAAAUAACUAUAUAAACAA
------((((((.----...(((.((......)).)))..........(((.((((....)))).)))....))))))...................... ( -19.90)
>consensus
______GGUGCCU____GCCUGACUGAAAUACCAAUCAACUCACUUCAAUUAUGCGACAUCGCACGAUAAACGGCACAAAAGAAAUAACUAUAUAAAUAA
.......(((((........(((.(((........)))..))).....((..((((....))))..))....)))))....................... ( -9.73 = -10.65 +   0.92)

alignment

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secondary structure

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dotplot

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Window 4

Location 16,090,702 – 16,090,796
Length 94
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 82.43
Mean single sequence MFE -22.90
Consensus MFE -13.92
Energy contribution -15.53
Covariance contribution 1.61
Combinations/Pair 1.12
Mean z-score -2.13
Structure conservation index 0.61
SVM decision value 0.12
SVM RNA-class probability 0.595590
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16090702 94 - 27905053
UUAUUUAUAUAGUUAUUUCUUUUGUGCCGUUUAUCGUGCGAUGUCGCAUAAUUGAAGUGAGUUGAUUGGUAUUUCAGUCAGGCAGACAGGCACC------
.......................(((((((((..((((((....))))).............(((((((....))))))))..)))).))))).------ ( -24.80)
>DroSec_CAF1 47780 90 - 1
AUAUUUAUAUAGUUAUUUCUUUUGUGCCGUUUAUCGUGCGAUGUCGCAUAAUUGAAGUGAGUUGAUUGGUAUUUCAGUCAGGC----AGGCACC------
.......................(((((.((((..(((((....)))))...)))).((..((((((((....)))))))).)----)))))).------ ( -22.80)
>DroSim_CAF1 53871 90 - 1
AUAUUUAUAUAGUUAUUUCUUUUGUGCCGUUUAUCGUGCGAUGUCGCAUAAUUGAAGUGAGUUGAUUGGUAUUUCAGUCAGGC----AGGCACC------
.......................(((((.((((..(((((....)))))...)))).((..((((((((....)))))))).)----)))))).------ ( -22.80)
>DroEre_CAF1 23285 90 - 1
UUAUUUAUAUAGUUAUUUCUUUUGUGCCGUUUAUCGUGCGAUGUCGCAUAAUUGAAGUGAGUUGAUUUGUAUUUCAGUCAGGC----AGGCACC------
.......................(((((((((...(((((....))))).(((((((((.(......).))))))))).))))----.))))).------ ( -20.50)
>DroWil_CAF1 2995 85 - 1
UUAUUU-UUGGCUUAUUUAUUAUGGCCC----------CCAUGCCGUUUAAUUGAAGUAAGCCGAUUUGUAUUUCAUUCAGAU----ACAUACCACCUUG
......-(((((((((((...(((((..----------....))))).......)))))))))))..(((((((.....))))----))).......... ( -21.10)
>DroYak_CAF1 66536 90 - 1
UUGUUUAUAUAGUUAUUUCUUUGGUGCCGUUUAUCGUGCGAUGUCGCAAAAUUGAAGUGAUUUGAUUGGUAUUUCAGUCAGGC----AGGCACC------
......................((((((.((((...((((....))))....)))).((.(((((((((....))))))))))----)))))))------ ( -25.40)
>consensus
UUAUUUAUAUAGUUAUUUCUUUUGUGCCGUUUAUCGUGCGAUGUCGCAUAAUUGAAGUGAGUUGAUUGGUAUUUCAGUCAGGC____AGGCACC______
............(((((((..((((((....((((....))))..))))))..))))))).((((((((....))))))))................... (-13.92 = -15.53 +   1.61)

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 12:13:46 2006