Locus 41

Sequence ID 3R_DroMel_CAF1
Location 298,166 – 298,357
Length 191
Max. P 0.978834
window65 window66

overview

Window 5

Location 298,166 – 298,286
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.06
Mean single sequence MFE -41.64
Consensus MFE -38.78
Energy contribution -39.26
Covariance contribution 0.48
Combinations/Pair 1.11
Mean z-score -1.60
Structure conservation index 0.93
SVM decision value 1.82
SVM RNA-class probability 0.978834
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 298166 120 + 27905053
UUGGUUUUCUGAUGUAACAGCGGUUGACGCGACAACUCGUUGACCAGUUGGCAAUUUCCAUUUCCAUCCAUGGCUACGAUUUGGCUAGGUGGCUAGCUGGCCAGUUGGCUGUGGGCCACU
.((((.......(((..(((((((..(((.(....).)))..))).)))))))..............(((((((((....((((((((........)))))))).))))))))))))).. ( -40.60)
>DroSec_CAF1 33614 120 + 1
UUGGCUUUCUGAUGUAACAGCGGUUGACGCGACAGCUCGUUGACCAGUUGGCAAUUUCCAUUUCCAUCCAUGGCUGCGAUUUGGCUAGCUAGCUAGCUGGCCAGUUGGCUGUGGGCCACU
.((((.......(((..(((((((..(((.(....).)))..))).)))))))..............(((((((((....((((((((((....)))))))))).))))))))))))).. ( -46.20)
>DroSim_CAF1 35301 120 + 1
UUGGCUUUCUGAUGUAACAGCGGUUGACGCGUCAGCUCGUUGACCAGUUGGCAAUUUCCAUUUCCAUCCAUGGCUGCGAUUUGGCUAGCUGGCUAGCUGGCCAGUUGGCUGUGGGCCACU
.((((.......(((..(((((((..(((.(....).)))..))).)))))))..............(((((((((....((((((((((....)))))))))).))))))))))))).. ( -46.80)
>DroEre_CAF1 36216 116 + 1
UUGGCUUUCUGAUGUAACAGCGGUUGACGCGACAGCCCGUUGACCAGUUGGCAAUUUCCAUUUCCAUUCAUGGCUGCGAUUUGGCUAGCUG----GCUGGCCAGUUGGCUGUGGGCCACU
.((((((............(((.....))).((((((..(((.(((((..((.....(((..((((........)).))..)))...))..----))))).)))..)))))))))))).. ( -43.70)
>DroYak_CAF1 37460 111 + 1
UU-UCUUUCUGAUGUAACAGCGGUUGACGCGACUACUUGUUGACCAGUUGGCAAUUUCCAUUUUCAUUCAUGGCUGCGAUUUGGCUAGCU--------GGCCAGUUGGCUGUGGGCCACU
..-..............(((((((..(((........)))..))).))))(((....((((........)))).)))....(((((.((.--------((((....)))))).))))).. ( -30.90)
>consensus
UUGGCUUUCUGAUGUAACAGCGGUUGACGCGACAGCUCGUUGACCAGUUGGCAAUUUCCAUUUCCAUCCAUGGCUGCGAUUUGGCUAGCUGGCUAGCUGGCCAGUUGGCUGUGGGCCACU
.((((.......(((..(((((((..(((.(....).)))..))).)))))))..............(((((((((....(((((((((......))))))))).))))))))))))).. (-38.78 = -39.26 +   0.48)

alignment

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secondary structure

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dotplot

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Window 6

Location 298,246 – 298,357
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.45
Mean single sequence MFE -45.04
Consensus MFE -36.36
Energy contribution -36.68
Covariance contribution 0.32
Combinations/Pair 1.16
Mean z-score -1.52
Structure conservation index 0.81
SVM decision value 0.11
SVM RNA-class probability 0.589367
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 298246 111 + 27905053
UUGGCUAGGUGGCUAGCUGGCCAGUUGGCUGUGGGCCACUAGAGCGUCGUCGAAACCACUUUCGCUUUCGGAGCCUCUCUAUGCUAGCGGUUUCGUCGAUGGCUUCGC---------UGG
(..((..(((((((.((.((((....)))))).))))))).((((((((.(((((((.((...((....((((...))))..)).)).))))))).)))).)))).))---------..) ( -46.80)
>DroSec_CAF1 33694 111 + 1
UUGGCUAGCUAGCUAGCUGGCCAGUUGGCUGUGGGCCACUAGAGCGCCGUCGAAACCACUUUCGCUUUCGGAGCCUCUCUAUGCUGGCGGUUGCGUCGAUGGCUUCGC---------UGG
((((((((((....)))))))))).((((.....))))((((...((((((((((((...((((....))))(((..........)))))))...))))))))....)---------))) ( -45.40)
>DroSim_CAF1 35381 111 + 1
UUGGCUAGCUGGCUAGCUGGCCAGUUGGCUGUGGGCCACUAGAGCGCCGUCGAAACCACUUUCGCUUUCGGAGCCUCUCUAUGCUGGCGGUUGCGUCGAUGGCUUCGC---------UGG
..((((((((((((....))))))))))))((((((((...((((((((((((((....))))((....((((...))))..)).))))).))).))..)))).))))---------... ( -46.40)
>DroEre_CAF1 36296 114 + 1
UUGGCUAGCUG----GCUGGCCAGUUGGCUGUGGGCCACUAGAGCGCCGUCGAAACCACUUUCGCUUUCGGAGCCUCUUUG--UUAGCGGUUGCGUCGAUGGCUUCGCUGGCGUCGCUGG
..(((((((((----(....))))))))))((((((((...(((.((((((((...((...(((((..(((((...)))))--..))))).))..)))))))))))..)))).))))... ( -51.70)
>DroYak_CAF1 37539 106 + 1
UUGGCUAGCU--------GGCCAGUUGGCUGUGGGCCACUAGGGUACCGUCGAAAUCACUUUCGCUUUCUGAGCCUCUCUAUUUUAGCGGUUGCGUCGAUGGCUUCGC------CGCUAU
.(((((.((.--------((((....)))))).))))).((((((.(((((((...((...(((((....(((...)))......))))).))..)))))))....))------).))). ( -34.90)
>consensus
UUGGCUAGCUGGCUAGCUGGCCAGUUGGCUGUGGGCCACUAGAGCGCCGUCGAAACCACUUUCGCUUUCGGAGCCUCUCUAUGCUAGCGGUUGCGUCGAUGGCUUCGC_________UGG
(((((((((......)))))))))...(((.(((....))).)))((((((((........(((((...((((...)))).....))))).....))))))))................. (-36.36 = -36.68 +   0.32)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:07 2006