Locus 3924

Sequence ID 3L_DroMel_CAF1
Location 11,380,235 – 11,380,399
Length 164
Max. P 0.987755
window6109 window6110 window6111

overview

Window 9

Location 11,380,235 – 11,380,330
Length 95
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 97.19
Mean single sequence MFE -29.93
Consensus MFE -29.00
Energy contribution -29.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.08
Structure conservation index 0.97
SVM decision value 2.09
SVM RNA-class probability 0.987755
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11380235 95 + 23771897
GUGGAAGUGGUUUGGUUUUCGGUUUUCUGUAUUGGAUUGGGUAUUGGAGAUUGGGUCUUAAGUCUUAGGUCUGGGGUCUUCAGACCAAACUACAA
......(((((((((((((((((((........))))))))...((((((((((..((........))..))..))))))))))))))))))).. ( -29.50)
>DroSec_CAF1 100246 95 + 1
GUGGAAGUGGUUUGGUUUUCGGUUUUCUGCAUUGGAUUGGGUAUUGGAGAUUGGGUCUUAAGUCUUAGGUCUGGUUUCUUCAGACCAAACUACGA
......(((((((((((((((((((........))))))).....((((((..(..((........))..)..))))))..)))))))))))).. ( -30.80)
>DroSim_CAF1 112696 95 + 1
GUGGAAGUGGUUUGGUUUUCGGUUUUCUGUAUUGGAUUGGGUAUUGGAGAUUGGGUCUUAAGUCUUAGGUCUGGGGUCUUCAGACCAAACUACGA
......(((((((((((((((((((........))))))))...((((((((((..((........))..))..))))))))))))))))))).. ( -29.50)
>consensus
GUGGAAGUGGUUUGGUUUUCGGUUUUCUGUAUUGGAUUGGGUAUUGGAGAUUGGGUCUUAAGUCUUAGGUCUGGGGUCUUCAGACCAAACUACGA
......(((((((((((((((((((........))))))))...(((((((..(..((........))..)..)..))))))))))))))))).. (-29.00 = -29.00 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,380,235 – 11,380,330
Length 95
Sequences 3
Columns 95
Reading direction reverse
Mean pairwise identity 97.19
Mean single sequence MFE -11.63
Consensus MFE -11.42
Energy contribution -11.20
Covariance contribution -0.22
Combinations/Pair 1.08
Mean z-score -1.47
Structure conservation index 0.98
SVM decision value 0.10
SVM RNA-class probability 0.584608
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11380235 95 - 23771897
UUGUAGUUUGGUCUGAAGACCCCAGACCUAAGACUUAAGACCCAAUCUCCAAUACCCAAUCCAAUACAGAAAACCGAAAACCAAACCACUUCCAC
(((((((((((((((.......))))))..))))...(((.....)))................))))).......................... ( -11.30)
>DroSec_CAF1 100246 95 - 1
UCGUAGUUUGGUCUGAAGAAACCAGACCUAAGACUUAAGACCCAAUCUCCAAUACCCAAUCCAAUGCAGAAAACCGAAAACCAAACCACUUCCAC
((..(((((((((((.......))))))..)))))...))....................................................... ( -11.80)
>DroSim_CAF1 112696 95 - 1
UCGUAGUUUGGUCUGAAGACCCCAGACCUAAGACUUAAGACCCAAUCUCCAAUACCCAAUCCAAUACAGAAAACCGAAAACCAAACCACUUCCAC
((..(((((((((((.......))))))..)))))...))....................................................... ( -11.80)
>consensus
UCGUAGUUUGGUCUGAAGACCCCAGACCUAAGACUUAAGACCCAAUCUCCAAUACCCAAUCCAAUACAGAAAACCGAAAACCAAACCACUUCCAC
((..(((((((((((.......))))))..)))))...))....................................................... (-11.42 = -11.20 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,380,300 – 11,380,399
Length 99
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 82.27
Mean single sequence MFE -26.23
Consensus MFE -13.36
Energy contribution -13.12
Covariance contribution -0.25
Combinations/Pair 1.17
Mean z-score -3.06
Structure conservation index 0.51
SVM decision value 0.48
SVM RNA-class probability 0.752577
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11380300 99 - 23771897
UACAGAUAUUACACUUUUAUAGCCGACAGACACGCUUAUCCACUCUAAUCGUGUCU----GUCUAUUGAUUCGUUGUAGUUUGGUCUGAAGACCCCAG-ACCUA
.......((((((...........((((((((((.(((.......))).)))))))----)))...........))))))..((((((.......)))-))).. ( -27.85)
>DroPse_CAF1 112919 99 - 1
UACAGAUAUUACACUUUUAUAGCCGACAGACACGCUUAUCCACUCUAAUCGUGUUU----GGCUGUCGCUCCGCCGUUGUCUUGUCUAUUGAUUCGUGGGCCC-
..................((((((((...(((((.(((.......))).)))))))----)))))).((.((((....(((.........)))..))))))..- ( -21.50)
>DroSec_CAF1 100311 99 - 1
UACAGAUAUUACACUUUUAUAGCCGACAGACACGCUUAUCCACUCUAAUCGUGUCU----GUCUAUUGAUUCGUCGUAGUUUGGUCUGAAGAAACCAG-ACCUA
.......(((((............((((((((((.(((.......))).)))))))----)))....((....)))))))..((((((.......)))-))).. ( -27.80)
>DroEre_CAF1 106957 96 - 1
UACAGAUAUUACACUUUUAUAGCAGACAGACACGCUUAUCCACUCUAAUCGUGUCU----GUCUAUUGAUUCG---UAGUCAGGUCUGAAGACCUCGG-ACCUC
....(((..(((.((.....)).(((((((((((.(((.......))).)))))))----))))........)---)))))((((((((.....))))-)))). ( -29.90)
>DroYak_CAF1 95523 96 - 1
UACAGAUAUUACACUUUUAUAGCCGACAGACACGCUUAUCCACUCUAAUCGUGUCU----GUCUAUUGAUUCG---UAGUCAGCUCUGAAGACCUCAA-AACCC
.............((((...(((.((((((((((.(((.......))).)))))))----)))...((((...---..)))))))..)))).......-..... ( -23.30)
>DroAna_CAF1 92353 91 - 1
UACAGAUAUUACACUUUUAUAGCCGGCAGACACGCUUAUCCACUCAAAUCGUGUCUGCCCGUCUAUUGAUUCG---UGGCCAGGUCUCAAGACC----------
...........(((.((.(((((.((((((((((.((.........)).)))))))))).).)))).))...)---))....((((....))))---------- ( -27.00)
>consensus
UACAGAUAUUACACUUUUAUAGCCGACAGACACGCUUAUCCACUCUAAUCGUGUCU____GUCUAUUGAUUCG___UAGUCAGGUCUGAAGACCCCAG_ACCU_
..(((((......((.....))..((((((((((.(((.......))).)))))))....(((....)))........)))..)))))................ (-13.36 = -13.12 +  -0.25)

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 11:10:09 2006