Locus 7177

Sequence ID X_DroMel_CAF1
Location 17,985,945 – 17,986,055
Length 110
Max. P 0.980173
window11724 window11725

overview

Window 4

Location 17,985,945 – 17,986,055
Length 110
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.51
Mean single sequence MFE -35.55
Consensus MFE -18.81
Energy contribution -18.70
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -2.59
Structure conservation index 0.53
SVM decision value -0.02
SVM RNA-class probability 0.523671
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17985945 110 + 22224390
CAAAG------UCCCCGUCCAAAACUAAUUACAAAUGUAGCAUUUAGA----AGGGACUGGGAAGCUGGAUGCCGCCACGGCAUCAGCUAAUUAUUUAAAAUGCUCGGCGACAUUAAAAA
....(------(((((((((....((((((((....))))...)))).----..)))).)))..(((((((((((...)))))))(((..............))))))))))........ ( -33.14)
>DroEre_CAF1 17654 114 + 1
AACAC------CCCCCAUCCACAGCUAAUUACAAAUGGAGUAUUUUGGGCGGGGGUACGAGGAAGCUGGAUGCCGCCACGGCAUCAGCUAAUUAUUUAAAAUGCUCGGCGACAUUAAAAA
.....------(((((..(((..(((............)))....)))..)))))..((((..(((((.((((((...))))))))))).(((......))).))))............. ( -32.80)
>DroYak_CAF1 16209 120 + 1
AUCCCCCCCUCCCCCAAGCCAAAGCUAAUUACGAGUGGAGUAUUUAGGGAGGGGGGAUGAGGGAACUGGAUGCCGCCACGGCAUCAGCUAAUUAUUUAAAAUGCUCGGCGACAUUAAAAA
...((((((((((...(((....)))...(((.......)))....))))))))))...((....)).((((.((((..(((((....(((....)))..))))).)))).))))..... ( -40.70)
>consensus
AACAC______CCCCCAUCCAAAGCUAAUUACAAAUGGAGUAUUUAGGG_GGGGGGACGAGGAAGCUGGAUGCCGCCACGGCAUCAGCUAAUUAUUUAAAAUGCUCGGCGACAUUAAAAA
.....................................((((((((..............((....)).(((((((...))))))).............))))))))(....)........ (-18.81 = -18.70 +  -0.11)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 17,985,945 – 17,986,055
Length 110
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.51
Mean single sequence MFE -37.92
Consensus MFE -25.77
Energy contribution -25.44
Covariance contribution -0.33
Combinations/Pair 1.21
Mean z-score -2.63
Structure conservation index 0.68
SVM decision value 1.86
SVM RNA-class probability 0.980173
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17985945 110 - 22224390
UUUUUAAUGUCGCCGAGCAUUUUAAAUAAUUAGCUGAUGCCGUGGCGGCAUCCAGCUUCCCAGUCCCU----UCUAAAUGCUACAUUUGUAAUUAGUUUUGGACGGGGA------CUUUG
......(((((((((.(((((..............)))))..))))))))).(((..((((.((((..----.((((.(((.......))).))))....)))).))))------..))) ( -34.54)
>DroEre_CAF1 17654 114 - 1
UUUUUAAUGUCGCCGAGCAUUUUAAAUAAUUAGCUGAUGCCGUGGCGGCAUCCAGCUUCCUCGUACCCCCGCCCAAAAUACUCCAUUUGUAAUUAGCUGUGGAUGGGGG------GUGUU
..........(((((.((.............(((((((((((...)))))).))))).............)).)......(((((((..((......))..))))))))------))).. ( -33.27)
>DroYak_CAF1 16209 120 - 1
UUUUUAAUGUCGCCGAGCAUUUUAAAUAAUUAGCUGAUGCCGUGGCGGCAUCCAGUUCCCUCAUCCCCCCUCCCUAAAUACUCCACUCGUAAUUAGCUUUGGCUUGGGGGAGGGGGGGAU
......(((((((((.(((((..............)))))..)))))))))............((((((((((((...(((.......)))...(((....)))..)))))))))))).. ( -45.94)
>consensus
UUUUUAAUGUCGCCGAGCAUUUUAAAUAAUUAGCUGAUGCCGUGGCGGCAUCCAGCUUCCUCGUCCCCCC_CCCUAAAUACUCCAUUUGUAAUUAGCUUUGGAUGGGGG______GUGUU
......(((((((((.(((((..............)))))..)))))))))......((((.((((.......((((.(((.......))).))))....)))).))))........... (-25.77 = -25.44 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:03 2006