Locus 8363

Sequence ID 3R_DroMel_CAF1
Location 22,312,080 – 22,312,173
Length 93
Max. P 0.907137
window13474 window13475

overview

Window 4

Location 22,312,080 – 22,312,173
Length 93
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 81.70
Mean single sequence MFE -22.01
Consensus MFE -14.13
Energy contribution -14.55
Covariance contribution 0.42
Combinations/Pair 1.13
Mean z-score -2.96
Structure conservation index 0.64
SVM decision value 1.05
SVM RNA-class probability 0.907137
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22312080 93 + 27905053
UAAACUAUCAAAUAUUGACAGCUGUGCAUUCGCAAAGCUGGGGAAUCAAUGCAAUAAACACAAACAAACCCUUGUCAGUG---UGUUGACAAGCCA
.......((((((((((((((((.(((....))).))))(((..........................)))..)))))))---).))))....... ( -21.47)
>DroSec_CAF1 28549 89 + 1
UAAACUGUCAAAUAUUGACAGCUGUGCAUUCGCAUAGCUGGGGAAUCAAUAGAAUAAACA----CAAACCCUUGUCAGCG---UGUUGACAAGCCA
............(((((((((((((((....))))))))).....)))))).........----......((((((((..---..))))))))... ( -26.40)
>DroSim_CAF1 28049 74 + 1
UAAACUGUCAAAUAUUGACAGCUGUGCAUUCACA-------------------AUAAACACAAACAAACCCUUGUCAGCG---UGUUGACAAGCCA
....((((((.....)))))).((((....))))-------------------.................((((((((..---..))))))))... ( -17.20)
>DroEre_CAF1 29722 93 + 1
CAAACUGUCAAAUAUUGACAGCUGUGCAUUCGCAUAGCUGGGGAAUCAAUACAAUAAACACAAACAAACCCUUGUCAGCG---UGUUGACAAGCCA
............(((((((((((((((....))))))))).....))))))...................((((((((..---..))))))))... ( -26.10)
>DroYak_CAF1 28528 93 + 1
UAAACUGUCAAAUAUUGACAGCUGUGCAUUCGCAUAGCUGGGGAAUCAAUACAAUAAACACAAAUAAACCCUUGUCAGCG---UGUUGACAAGCCA
............(((((((((((((((....))))))))).....))))))...................((((((((..---..))))))))... ( -26.10)
>DroAna_CAF1 28566 81 + 1
UAAACUGUCCAAUAUUGACAGCCCU---------------GGGAAUCAAUACAAUAAACACAAACAAACCCAUGUCGGGGGGAUGUUGACAAGCCA
.....((((...((((((...((..---------------.))..))))))...........((((..(((.......)))..))))))))..... ( -14.80)
>consensus
UAAACUGUCAAAUAUUGACAGCUGUGCAUUCGCAUAGCUGGGGAAUCAAUACAAUAAACACAAACAAACCCUUGUCAGCG___UGUUGACAAGCCA
....((((((.....)))))).................................................(((((((((.....)))))))))... (-14.13 = -14.55 +   0.42)

alignment

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secondary structure

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dotplot

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Window 5

Location 22,312,080 – 22,312,173
Length 93
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 81.70
Mean single sequence MFE -22.73
Consensus MFE -14.13
Energy contribution -14.35
Covariance contribution 0.22
Combinations/Pair 1.13
Mean z-score -1.64
Structure conservation index 0.62
SVM decision value -0.05
SVM RNA-class probability 0.507859
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22312080 93 - 27905053
UGGCUUGUCAACA---CACUGACAAGGGUUUGUUUGUGUUUAUUGCAUUGAUUCCCCAGCUUUGCGAAUGCACAGCUGUCAAUAUUUGAUAGUUUA
.((((.(((((..---...((((..(((...(((.((((.....)))).)))..)))((((.(((....))).))))))))....))))))))).. ( -24.20)
>DroSec_CAF1 28549 89 - 1
UGGCUUGUCAACA---CGCUGACAAGGGUUUG----UGUUUAUUCUAUUGAUUCCCCAGCUAUGCGAAUGCACAGCUGUCAAUAUUUGACAGUUUA
.((((.(((((.(---(((.(((....))).)----)))......((((((.....(((((.(((....))).))))))))))).))))))))).. ( -23.10)
>DroSim_CAF1 28049 74 - 1
UGGCUUGUCAACA---CGCUGACAAGGGUUUGUUUGUGUUUAU-------------------UGUGAAUGCACAGCUGUCAAUAUUUGACAGUUUA
...(((((((...---...)))))))........(((((....-------------------.......)))))(((((((.....)))))))... ( -20.00)
>DroEre_CAF1 29722 93 - 1
UGGCUUGUCAACA---CGCUGACAAGGGUUUGUUUGUGUUUAUUGUAUUGAUUCCCCAGCUAUGCGAAUGCACAGCUGUCAAUAUUUGACAGUUUG
.((((.(((((.(---(((.(((((....))))).)))).....(((((((.....(((((.(((....))).))))))))))))))))))))).. ( -25.50)
>DroYak_CAF1 28528 93 - 1
UGGCUUGUCAACA---CGCUGACAAGGGUUUAUUUGUGUUUAUUGUAUUGAUUCCCCAGCUAUGCGAAUGCACAGCUGUCAAUAUUUGACAGUUUA
...(((((((...---...)))))))..........((((....(((((((.....(((((.(((....))).))))))))))))..))))..... ( -25.20)
>DroAna_CAF1 28566 81 - 1
UGGCUUGUCAACAUCCCCCCGACAUGGGUUUGUUUGUGUUUAUUGUAUUGAUUCCC---------------AGGGCUGUCAAUAUUGGACAGUUUA
.((((.(((((((..(((.......)))..))))..........((((((((..(.---------------...)..))))))))..))))))).. ( -18.40)
>consensus
UGGCUUGUCAACA___CGCUGACAAGGGUUUGUUUGUGUUUAUUGUAUUGAUUCCCCAGCUAUGCGAAUGCACAGCUGUCAAUAUUUGACAGUUUA
...(((((((.........)))))))...............................................((((((((.....)))))))).. (-14.13 = -14.35 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:42 2006