Locus 6481

Sequence ID 3L_DroMel_CAF1
Location 17,250,931 – 17,251,044
Length 113
Max. P 0.887930
window10451 window10452

overview

Window 1

Location 17,250,931 – 17,251,044
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.76
Mean single sequence MFE -42.36
Consensus MFE -30.70
Energy contribution -32.02
Covariance contribution 1.32
Combinations/Pair 1.06
Mean z-score -2.01
Structure conservation index 0.72
SVM decision value 0.27
SVM RNA-class probability 0.663448
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17250931 113 + 23771897
UGAUUCGCCAUGCUUACAC-------ACACUCUCGUAUGUCCCGGCAAGGACUCGAAGGAUGUCCCCAAGUUUGGCUGCCAAAGUUAGUUGGGCCUUCGGGUGGCGAAUCAAUAAGAAGG
(((((((((.((((...((-------(.((....)).)))...))))...(((((((((.....(((((..((((((.....)))))))))))))))))))))))))))))......... ( -42.60)
>DroSec_CAF1 134744 113 + 1
UGAUUCGCAGUGCUUACAC-------ACACUCUCGUAUGUCCUGGCAAGGACUCGAAGGAUGUCCCCAAGUUUGGCUGCCAAAGUUAGUUGGGCCAUCGGGUGGCGAAUCAAUAAGAAGG
((((((((.(((....)))-------.((((((((...(((((....))))).)))..((((..(((((..((((((.....))))))))))).)))))))))))))))))......... ( -43.80)
>DroSim_CAF1 129547 113 + 1
UGAUUCGCAGUGCUUACAC-------ACACUCUCGUAUGUCCUGGCAAGGACUCGAAGGAUGUCCCCAAGUUUGGCUGCCAAAGUUAGUUGGGCCAUCGGGUGGCGAAUCAAUAAGAAGG
((((((((.(((....)))-------.((((((((...(((((....))))).)))..((((..(((((..((((((.....))))))))))).)))))))))))))))))......... ( -43.80)
>DroEre_CAF1 137882 113 + 1
UGACUCGUAGGGCUUACAC-------CCACUCUCGCAGGUCCUGGCAAGGACUCGAAGGAUGUCCCCCAGCUUGGCUGCCAAAGUUGGUUGGGCCUUCGGGUGGCGAAUCAAUAAGAAGG
(((.((((.(((......)-------)).(.((((.((((((......((((((....)).)))).(((((((((...)).)))))))..)))))).)))).))))).)))......... ( -43.30)
>DroYak_CAF1 141589 120 + 1
UGACUCGCAGGGCUUACACACUCGACACACUCUCGCAAGUCCUGGGAAGGACUCGCAGGAUGUCCCCAAGUUGGGCUGCCAAAGUUAGUUGGGCCUUCGGGUGGCGAAUAAAUAAGAAGG
....((((.(......).(((((((.(((..((.((.((((((....)))))).))))..))).(((((....((((.....))))..)))))...)))))))))))............. ( -38.30)
>consensus
UGAUUCGCAGUGCUUACAC_______ACACUCUCGUAUGUCCUGGCAAGGACUCGAAGGAUGUCCCCAAGUUUGGCUGCCAAAGUUAGUUGGGCCUUCGGGUGGCGAAUCAAUAAGAAGG
((((((((.(......)..........(((((......(((((....)))))..(((((.....(((((.(..((((.....))))).)))))))))))))))))))))))......... (-30.70 = -32.02 +   1.32)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,250,931 – 17,251,044
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.76
Mean single sequence MFE -39.80
Consensus MFE -30.36
Energy contribution -30.28
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -2.13
Structure conservation index 0.76
SVM decision value 0.95
SVM RNA-class probability 0.887930
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17250931 113 - 23771897
CCUUCUUAUUGAUUCGCCACCCGAAGGCCCAACUAACUUUGGCAGCCAAACUUGGGGACAUCCUUCGAGUCCUUGCCGGGACAUACGAGAGUGU-------GUGUAAGCAUGGCGAAUCA
.........((((((((((((((..(((((((......))))..)))..((((((((.....))))))))......))))((((((....))))-------)).......)))))))))) ( -44.80)
>DroSec_CAF1 134744 113 - 1
CCUUCUUAUUGAUUCGCCACCCGAUGGCCCAACUAACUUUGGCAGCCAAACUUGGGGACAUCCUUCGAGUCCUUGCCAGGACAUACGAGAGUGU-------GUGUAAGCACUGCGAAUCA
.........((((((((..(((((((((((((......))))..))))...)))))...........(((.(((((....((((((....))))-------))))))).))))))))))) ( -38.30)
>DroSim_CAF1 129547 113 - 1
CCUUCUUAUUGAUUCGCCACCCGAUGGCCCAACUAACUUUGGCAGCCAAACUUGGGGACAUCCUUCGAGUCCUUGCCAGGACAUACGAGAGUGU-------GUGUAAGCACUGCGAAUCA
.........((((((((..(((((((((((((......))))..))))...)))))...........(((.(((((....((((((....))))-------))))))).))))))))))) ( -38.30)
>DroEre_CAF1 137882 113 - 1
CCUUCUUAUUGAUUCGCCACCCGAAGGCCCAACCAACUUUGGCAGCCAAGCUGGGGGACAUCCUUCGAGUCCUUGCCAGGACCUGCGAGAGUGG-------GUGUAAGCCCUACGAGUCA
.........(((((((.....(((((((((..(((....)))((((...)))).)))....))))))((..(((((....(((..(....)..)-------)))))))..)).))))))) ( -37.90)
>DroYak_CAF1 141589 120 - 1
CCUUCUUAUUUAUUCGCCACCCGAAGGCCCAACUAACUUUGGCAGCCCAACUUGGGGACAUCCUGCGAGUCCUUCCCAGGACUUGCGAGAGUGUGUCGAGUGUGUAAGCCCUGCGAGUCA
....(((((.((((((.(.(((((.(((((((......))))..)))....))))).(((..(((((((((((....))))))))).))..)))).)))))).)))))............ ( -39.70)
>consensus
CCUUCUUAUUGAUUCGCCACCCGAAGGCCCAACUAACUUUGGCAGCCAAACUUGGGGACAUCCUUCGAGUCCUUGCCAGGACAUACGAGAGUGU_______GUGUAAGCACUGCGAAUCA
.........((((((((..(((((.(((((((......))))..)))....))))).((((.......(((((....)))))((((....)))).......)))).......)))))))) (-30.36 = -30.28 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:43 2006