Locus 8036

Sequence ID 3L_DroMel_CAF1
Location 21,166,997 – 21,167,157
Length 160
Max. P 0.949712
window13127 window13128 window13129

overview

Window 7

Location 21,166,997 – 21,167,117
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.89
Mean single sequence MFE -39.10
Consensus MFE -36.14
Energy contribution -36.03
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -2.47
Structure conservation index 0.92
SVM decision value 1.32
SVM RNA-class probability 0.941275
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21166997 120 + 23771897
UGUCGAAUCGGAUGGGGUUAUUAUGGCUUAUGGGUUGUGGGCUGUGGCAAUGCUGCAGCUGGCAAUUGCUGAUUGUCGAUUGCUUUUUGCAGUUGCCGUGAGAGAUUUUCCAAUUAAGUU
.........(((..(((((.(((((((.....((((((.(((((..((...))..))))).))))))..........((((((.....)))))))))))))..))))))))......... ( -39.40)
>DroSec_CAF1 37957 120 + 1
UGUCGAAUCGGAUGGGGUUAUUAUGGCUUAUGGGUUGUGGGCUGUGGCAAUGCUGCAGCUGGCAAUUGCUGAUUGUCGAUUGCCUUUUGCAGUUGCCGUGAGAGAUUUUCCAAUUAAGUU
((..(((((.............(((((((((.....)))))))))((((..(((((((..(((((((((.....).))))))))..)))))))))))......)))))..))........ ( -39.70)
>DroEre_CAF1 34081 113 + 1
UGUCGAAUCGGAUGGGGUUAUUAUGGCUUAUGGGUUG-------UGGCAAUGCUGCAGCUGGCAAUUGCUGUUGGUCGAUUGCCUUUUGCAGCUGCCGUGAGAGAUUUUCCAAUUAAGUU
((..(((((..(((((.(......).)))))...(..-------(((((..(((((((..(((((((((.....).))))))))..))))))))))))..)..)))))..))........ ( -38.20)
>consensus
UGUCGAAUCGGAUGGGGUUAUUAUGGCUUAUGGGUUGUGGGCUGUGGCAAUGCUGCAGCUGGCAAUUGCUGAUUGUCGAUUGCCUUUUGCAGUUGCCGUGAGAGAUUUUCCAAUUAAGUU
.........(((..(((((.(((((((......(((((........)))))(((((((..(((((((((.....).))))))))..))))))).)))))))..))))))))......... (-36.14 = -36.03 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,166,997 – 21,167,117
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 93.89
Mean single sequence MFE -24.58
Consensus MFE -21.99
Energy contribution -22.10
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.83
Structure conservation index 0.89
SVM decision value 1.39
SVM RNA-class probability 0.949712
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21166997 120 - 23771897
AACUUAAUUGGAAAAUCUCUCACGGCAACUGCAAAAAGCAAUCGACAAUCAGCAAUUGCCAGCUGCAGCAUUGCCACAGCCCACAACCCAUAAGCCAUAAUAACCCCAUCCGAUUCGACA
.....(((((((...........((((((((((....(((((.(........).)))))....)))))..)))))...((.............)).............)))))))..... ( -22.02)
>DroSec_CAF1 37957 120 - 1
AACUUAAUUGGAAAAUCUCUCACGGCAACUGCAAAAGGCAAUCGACAAUCAGCAAUUGCCAGCUGCAGCAUUGCCACAGCCCACAACCCAUAAGCCAUAAUAACCCCAUCCGAUUCGACA
.....(((((((...........((((((((((...((((((.(........).))))))...)))))..)))))...((.............)).............)))))))..... ( -25.62)
>DroEre_CAF1 34081 113 - 1
AACUUAAUUGGAAAAUCUCUCACGGCAGCUGCAAAAGGCAAUCGACCAACAGCAAUUGCCAGCUGCAGCAUUGCCA-------CAACCCAUAAGCCAUAAUAACCCCAUCCGAUUCGACA
.....(((((((...........((((((((((...((((((.(........).))))))...))))))..)))).-------.....(....)..............)))))))..... ( -26.10)
>consensus
AACUUAAUUGGAAAAUCUCUCACGGCAACUGCAAAAGGCAAUCGACAAUCAGCAAUUGCCAGCUGCAGCAUUGCCACAGCCCACAACCCAUAAGCCAUAAUAACCCCAUCCGAUUCGACA
.....(((((((...........((((((((((...((((((.(........).))))))...)))))..))))).............(....)..............)))))))..... (-21.99 = -22.10 +   0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,167,037 – 21,167,157
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.78
Mean single sequence MFE -37.57
Consensus MFE -33.93
Energy contribution -33.27
Covariance contribution -0.66
Combinations/Pair 1.09
Mean z-score -1.74
Structure conservation index 0.90
SVM decision value 0.16
SVM RNA-class probability 0.612735
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21167037 120 + 23771897
GCUGUGGCAAUGCUGCAGCUGGCAAUUGCUGAUUGUCGAUUGCUUUUUGCAGUUGCCGUGAGAGAUUUUCCAAUUAAGUUGGCUUAGAGAGCUGCUAAAAUCGUUGAAAGCCCAAAGCGA
(((.((((((((..(((((((((((((((.((..((.....))..)).))))))))).((((.(((((.......)))))..))))...))))))......))))).....))).))).. ( -36.90)
>DroSec_CAF1 37997 120 + 1
GCUGUGGCAAUGCUGCAGCUGGCAAUUGCUGAUUGUCGAUUGCCUUUUGCAGUUGCCGUGAGAGAUUUUCCAAUUAAGUUGGCUUAGAGAGCUGCUAGAAUCGUUGAAAGCCCAAAGCGA
(((..((((..(((((((..(((((((((.....).))))))))..)))))))))))......((((((.......(((.(((((...)))))))))))))).............))).. ( -37.01)
>DroEre_CAF1 34118 115 + 1
----UGGCAAUGCUGCAGCUGGCAAUUGCUGUUGGUCGAUUGCCUUUUGCAGCUGCCGUGAGAGAUUUUCCAAUUAAGUUGGCUUAGA-AGCUGAUAAAAUCGUUGAAAGCCUAAAACGA
----.((((..(((((((..(((((((((.....).))))))))..)))))))))))((...((..((((..(((..((..(((....-)))..))..)))....))))..))...)).. ( -38.80)
>consensus
GCUGUGGCAAUGCUGCAGCUGGCAAUUGCUGAUUGUCGAUUGCCUUUUGCAGUUGCCGUGAGAGAUUUUCCAAUUAAGUUGGCUUAGAGAGCUGCUAAAAUCGUUGAAAGCCCAAAGCGA
.....((((..(((((((..(((((((((.....).))))))))..))))))))))).((((.(((((.......)))))..))))..............(((((..........))))) (-33.93 = -33.27 +  -0.66)

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 13:04:29 2006