Locus 5464

Sequence ID 3R_DroMel_CAF1
Location 14,445,187 – 14,445,307
Length 120
Max. P 0.995835
window8894 window8895

overview

Window 4

Location 14,445,187 – 14,445,307
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.16
Mean single sequence MFE -29.49
Consensus MFE -26.44
Energy contribution -27.28
Covariance contribution 0.84
Combinations/Pair 1.09
Mean z-score -1.20
Structure conservation index 0.90
SVM decision value 0.06
SVM RNA-class probability 0.564736
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14445187 120 + 27905053
UAGAUAUCCACUUGGCGCUGUAAUGCACCGUCAGUGAAUGCCGUCCAUGAUGUUGAUGGCGAUAAUAAUUUGUAUGCCAUUCCAUCAAUACAAGGCUUUCCAUAGAUUACUCUCUCGCUU
.(((.(((((((.((((.((.....)).))))))))...(((.....(((((..(((((((((((....)))).))))))).)))))......)))........)))...)))....... ( -29.70)
>DroSec_CAF1 2358 120 + 1
UAGAUAUCCACUUGGCGCUGUAAUGCACCGUCAGCGAAUGCCGUCCAUGAUGUUGAUGGCGAUAAUAAUUUGUAUGCCAUUCCAUCAAUACAAGGCUUUCCAUAGAUUACUCUGUCGCUU
............(((((.((.....)).)))))((((..(((.....(((((..(((((((((((....)))).))))))).)))))......)))......((((....)))))))).. ( -31.50)
>DroSim_CAF1 2427 120 + 1
UAGAUAUCCACUUGGCGCUGUAAUGCACCGCCAGCGAAUGCCGUCCAUGAUGUUGAUGGCGAUAAUAAUUUGUAUGCCAUUCCAUCAAUACAAGGCUUUCCAUAGAUUACUCUGUCGCUU
............(((((.((.....)).)))))((((..(((.....(((((..(((((((((((....)))).))))))).)))))......)))......((((....)))))))).. ( -34.20)
>DroEre_CAF1 2313 117 + 1
UAGAUAUCCACUUGGCGCUGUAAUGCACCGUCAGCGAAUGCCGUCCAU---GUUGAUGGCGAUAAUAAUUUGUAUGCCAUUCCAUCAAUACCAGGCUUUCCAUAGAUUACUCUGUCGUUU
..((((......(((((.((.....)).)))))(.(((.(((.....(---((((((((((((((....)))).))))).....))))))...))).))))...........)))).... ( -25.60)
>DroYak_CAF1 2446 117 + 1
UAGAUAUCCACUUGGCGCUGUAAUGCACCGUCAGCGAACGCCGUCCAU---GUUGAUGGCGAUAAUAAUUUGUAUGCCAUUCCAUCAAUACCAGGCUUUCCAUAGAUUACUCUGUCGUUU
............(((((.((.....)).)))))((((.(((((((...---...)))))))....((((((((..(((...............))).....)))))))).....)))).. ( -26.46)
>consensus
UAGAUAUCCACUUGGCGCUGUAAUGCACCGUCAGCGAAUGCCGUCCAUGAUGUUGAUGGCGAUAAUAAUUUGUAUGCCAUUCCAUCAAUACAAGGCUUUCCAUAGAUUACUCUGUCGCUU
............(((((.((.....)).)))))((((..(((.....(((((..(((((((((((....)))).))))))).)))))......)))......((((....)))))))).. (-26.44 = -27.28 +   0.84)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,445,187 – 14,445,307
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.16
Mean single sequence MFE -34.02
Consensus MFE -31.40
Energy contribution -32.28
Covariance contribution 0.88
Combinations/Pair 1.05
Mean z-score -1.92
Structure conservation index 0.92
SVM decision value 2.62
SVM RNA-class probability 0.995835
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14445187 120 - 27905053
AAGCGAGAGAGUAAUCUAUGGAAAGCCUUGUAUUGAUGGAAUGGCAUACAAAUUAUUAUCGCCAUCAACAUCAUGGACGGCAUUCACUGACGGUGCAUUACAGCGCCAAGUGGAUAUCUA
.......(((....))).((((..(((.(.(((.((((..((((((((........))).)))))...))))))).).)))(((((((...(((((......))))).))))))).)))) ( -35.80)
>DroSec_CAF1 2358 120 - 1
AAGCGACAGAGUAAUCUAUGGAAAGCCUUGUAUUGAUGGAAUGGCAUACAAAUUAUUAUCGCCAUCAACAUCAUGGACGGCAUUCGCUGACGGUGCAUUACAGCGCCAAGUGGAUAUCUA
.......(((....))).((((..(((.(.(((.((((..((((((((........))).)))))...))))))).).)))(((((((...(((((......))))).))))))).)))) ( -35.30)
>DroSim_CAF1 2427 120 - 1
AAGCGACAGAGUAAUCUAUGGAAAGCCUUGUAUUGAUGGAAUGGCAUACAAAUUAUUAUCGCCAUCAACAUCAUGGACGGCAUUCGCUGGCGGUGCAUUACAGCGCCAAGUGGAUAUCUA
.......(((....))).((((..(((.(.(((.((((..((((((((........))).)))))...))))))).).)))(((((((((((.((.....)).)))).))))))).)))) ( -36.90)
>DroEre_CAF1 2313 117 - 1
AAACGACAGAGUAAUCUAUGGAAAGCCUGGUAUUGAUGGAAUGGCAUACAAAUUAUUAUCGCCAUCAAC---AUGGACGGCAUUCGCUGACGGUGCAUUACAGCGCCAAGUGGAUAUCUA
.......(((((..((((((.......((((..((((((..((.....))..))))))..))))....)---)))))..))(((((((...(((((......))))).))))))).))). ( -30.90)
>DroYak_CAF1 2446 117 - 1
AAACGACAGAGUAAUCUAUGGAAAGCCUGGUAUUGAUGGAAUGGCAUACAAAUUAUUAUCGCCAUCAAC---AUGGACGGCGUUCGCUGACGGUGCAUUACAGCGCCAAGUGGAUAUCUA
.......(((((..((((((.......((((..((((((..((.....))..))))))..))))....)---)))))..))(((((((...(((((......))))).))))))).))). ( -31.20)
>consensus
AAGCGACAGAGUAAUCUAUGGAAAGCCUUGUAUUGAUGGAAUGGCAUACAAAUUAUUAUCGCCAUCAACAUCAUGGACGGCAUUCGCUGACGGUGCAUUACAGCGCCAAGUGGAUAUCUA
.......(((....))).((((..(((..((..(((((..((((((((........))).)))))...)))))...)))))(((((((...(((((......))))).))))))).)))) (-31.40 = -32.28 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:24 2006