Locus 6853

Sequence ID 3L_DroMel_CAF1
Location 18,398,271 – 18,398,367
Length 96
Max. P 0.917403
window11112 window11113

overview

Window 2

Location 18,398,271 – 18,398,367
Length 96
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 79.32
Mean single sequence MFE -24.49
Consensus MFE -13.67
Energy contribution -13.87
Covariance contribution 0.19
Combinations/Pair 1.05
Mean z-score -1.93
Structure conservation index 0.56
SVM decision value 0.33
SVM RNA-class probability 0.692557
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18398271 96 + 23771897
UUGGCUUAAACAAAUCAUUUAUAUGCAGCGCUCGCAAUUAUUUGCACUUAAUUGUGUGUUAAGUGCCCCAGACUGGGAUGU--UC--GGUGUGCAUAUAG----------
...................((((((((.((((.(((.......(((((((((.....)))))))))(((.....))).)))--..--)))))))))))).---------- ( -29.00)
>DroPse_CAF1 34899 82 + 1
UUGGCUUAAACAAAUCAUUUAUAUGCAGCGUUUGCAAUUAUUUGCACUUAAUUGUGUGUUAAGUGCCCCAGACUGGGAUGU--U--------------------------
........((((...........(((((...))))).......(((((((((.....)))))))))(((.....))).)))--)-------------------------- ( -17.70)
>DroGri_CAF1 178625 107 + 1
UCGGCUUAAACAAAUCAUUUAUAUGCAGCGUUUGCAAUUAUUUGCACUUAAUUGUGUGUUAAGUGCCC-AGCCAGCAAUGCCUUC--GCUGUUGUUGUAGAGCCUGACGC
..(((((.(((((..(((....)))(((((...(((.......(((((((((.....)))))))))..-.(....)..)))...)--)))))))))...)))))...... ( -29.50)
>DroWil_CAF1 445057 95 + 1
UUAGCUUAAACAAAUCAUUUAUAUGCAGCGUUUGCAAUUAUUUGCACUUAAUUGUGUGUUAAGUGCCCAAGCCUGGGAUGG--AU--GAUGCGA-UGCGA----------
...((........(((((((((.(.(((.(((((.........(((((((((.....))))))))).)))))))).)))))--))--)))....-.))..---------- ( -25.02)
>DroAna_CAF1 31574 98 + 1
UUAGCUUAAACAAAUCAUUUAUAUGCAGCGCUUGCAAUUAUUUGCACUUAAUUGUGUGUUAAGUGCCCCAGACUGGGAUGC--AAGCAGUAUACACAUAC----------
.....................(((((...(((((((.......(((((((((.....)))))))))(((.....))).)))--)))).))))).......---------- ( -28.00)
>DroPer_CAF1 34732 82 + 1
UUGGCUUAAACAAAUCAUUUAUAUGCAGCGUUUGCAAUUAUUUGCACUUAAUUGUGUGUUAAGUGCCCCAGACUGGGAUGU--U--------------------------
........((((...........(((((...))))).......(((((((((.....)))))))))(((.....))).)))--)-------------------------- ( -17.70)
>consensus
UUGGCUUAAACAAAUCAUUUAUAUGCAGCGUUUGCAAUUAUUUGCACUUAAUUGUGUGUUAAGUGCCCCAGACUGGGAUGU__U___G_UGU___U_UA___________
...............(((((...(((((...))))).......(((((((((.....))))))))).........))))).............................. (-13.67 = -13.87 +   0.19)

alignment

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secondary structure

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dotplot

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Window 3

Location 18,398,271 – 18,398,367
Length 96
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 79.32
Mean single sequence MFE -21.98
Consensus MFE -13.60
Energy contribution -13.60
Covariance contribution 0.00
Combinations/Pair 1.14
Mean z-score -2.26
Structure conservation index 0.62
SVM decision value 1.11
SVM RNA-class probability 0.917403
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18398271 96 - 23771897
----------CUAUAUGCACACC--GA--ACAUCCCAGUCUGGGGCACUUAACACACAAUUAAGUGCAAAUAAUUGCGAGCGCUGCAUAUAAAUGAUUUGUUUAAGCCAA
----------.(((((((((.((--(.--....(((.....)))((((((((.......)))))))).........)).).).))))))))................... ( -23.20)
>DroPse_CAF1 34899 82 - 1
--------------------------A--ACAUCCCAGUCUGGGGCACUUAACACACAAUUAAGUGCAAAUAAUUGCAAACGCUGCAUAUAAAUGAUUUGUUUAAGCCAA
--------------------------.--....(((.....)))((((((((.......)))))))).......((((.....))))..(((((.....)))))...... ( -16.00)
>DroGri_CAF1 178625 107 - 1
GCGUCAGGCUCUACAACAACAGC--GAAGGCAUUGCUGGCU-GGGCACUUAACACACAAUUAAGUGCAAAUAAUUGCAAACGCUGCAUAUAAAUGAUUUGUUUAAGCCGA
......((((..((((((.((((--((.....))))))..)-).((((((((.......)))))))).......((((.....))))..........))))...)))).. ( -27.20)
>DroWil_CAF1 445057 95 - 1
----------UCGCA-UCGCAUC--AU--CCAUCCCAGGCUUGGGCACUUAACACACAAUUAAGUGCAAAUAAUUGCAAACGCUGCAUAUAAAUGAUUUGUUUAAGCUAA
----------..((.-..(((..--..--(((.(....)..)))((((((((.......)))))))).......)))(((((...(((....)))...)))))..))... ( -18.60)
>DroAna_CAF1 31574 98 - 1
----------GUAUGUGUAUACUGCUU--GCAUCCCAGUCUGGGGCACUUAACACACAAUUAAGUGCAAAUAAUUGCAAGCGCUGCAUAUAAAUGAUUUGUUUAAGCUAA
----------.((((((((...(((((--(((.(((.....)))((((((((.......)))))))).......)))))))).))))))))................... ( -30.90)
>DroPer_CAF1 34732 82 - 1
--------------------------A--ACAUCCCAGUCUGGGGCACUUAACACACAAUUAAGUGCAAAUAAUUGCAAACGCUGCAUAUAAAUGAUUUGUUUAAGCCAA
--------------------------.--....(((.....)))((((((((.......)))))))).......((((.....))))..(((((.....)))))...... ( -16.00)
>consensus
___________UA_A___ACA_C___A__ACAUCCCAGUCUGGGGCACUUAACACACAAUUAAGUGCAAAUAAUUGCAAACGCUGCAUAUAAAUGAUUUGUUUAAGCCAA
.................................(((.....)))((((((((.......))))))))........(((((((...(((....)))...)))))..))... (-13.60 = -13.60 +   0.00)

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 12:31:20 2006