Locus 5704

Sequence ID 2L_DroMel_CAF1
Location 16,233,159 – 16,233,249
Length 90
Max. P 0.943826
window9038 window9039

overview

Window 8

Location 16,233,159 – 16,233,249
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 76.87
Mean single sequence MFE -33.32
Consensus MFE -21.25
Energy contribution -20.95
Covariance contribution -0.30
Combinations/Pair 1.52
Mean z-score -1.97
Structure conservation index 0.64
SVM decision value 1.34
SVM RNA-class probability 0.943826
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16233159 90 + 22407834
AUCCGAGGGCACGUUUGUUGGGAGUCGCUGGAACAGACGUGCCCGUGGAAGAUAUAGACAAGCUGACACUGCCCUACAAGGUGGAAAUGA
.((((.(((((((((((((.((.....)).).)))))))))))).))))...................(..((......))..)...... ( -32.30)
>DroPse_CAF1 219917 88 + 1
AUCGAAGGGCGCGUCUGUUGGGCGUGGCAGGAACAGACGUGCCCGUGGAGGACAUAGACAAGCUGACGCUUCCCUACAAGGUGAGUC-C-
.((.(.(((((((((((((..((...))...))))))))))))).).))((((.......(((....)))((((.....)).)))))-)- ( -35.30)
>DroGri_CAF1 163907 88 + 1
GACGGAGAGCUCGGCUGCUGGGUGUGGCUGGCACGGAUGUGCCUGUGGAGGACAUUGAUAAGCUAACGCUGCCCUAUAAGGUUUGCG--A
..((.(((.((.(((..(.....)..)))(((((....)))))(((((.((.........(((....))).))))))))).))).))--. ( -27.40)
>DroMoj_CAF1 248009 90 + 1
AAAGACGGGCACGUCUCCUGGGCGUAGCCGGCACAGAUGUGCCCGUCGAGGAUAUAGACAAAUUGACAUUGCCUUACAAGGUAGGUGUCA
...(((((((((((((.((((......))))...)))))))))))))................(((((((((((....))))).)))))) ( -40.20)
>DroAna_CAF1 148210 84 + 1
ACCGGAGGGCACGUCUGUUGGGAGUCGCUGGGACAGAUGUGCCCGUGGAAGAUAUAGACAAGCUGACAUUGCCCUACAAGGUAC------
(((...(((((((((((((.((.....)).).))))))))))))((((..(((.(((.....)))..)))...))))..)))..------ ( -29.40)
>DroPer_CAF1 228891 88 + 1
AUCGAAGGGCGCGUCUGUUGGGCGUGGCAGGAACAGACGUGCCCGUGGAGGACAUAGACAAGCUGACGCUUCCCUACAAGGUGAGUC-C-
.((.(.(((((((((((((..((...))...))))))))))))).).))((((.......(((....)))((((.....)).)))))-)- ( -35.30)
>consensus
AUCGAAGGGCACGUCUGUUGGGCGUGGCUGGAACAGACGUGCCCGUGGAGGACAUAGACAAGCUGACACUGCCCUACAAGGUGAGUC_C_
......(((((((((((((.((.....)).).))))))))))))(((..((.(........)))..)))((((......))))....... (-21.25 = -20.95 +  -0.30)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 16,233,159 – 16,233,249
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 76.87
Mean single sequence MFE -28.26
Consensus MFE -12.53
Energy contribution -12.51
Covariance contribution -0.03
Combinations/Pair 1.37
Mean z-score -1.98
Structure conservation index 0.44
SVM decision value -0.04
SVM RNA-class probability 0.512601
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16233159 90 - 22407834
UCAUUUCCACCUUGUAGGGCAGUGUCAGCUUGUCUAUAUCUUCCACGGGCACGUCUGUUCCAGCGACUCCCAACAAACGUGCCCUCGGAU
.....(((........(((((((....)).)))))...........((((((((.((((............)))).))))))))..))). ( -25.40)
>DroPse_CAF1 219917 88 - 1
-G-GACUCACCUUGUAGGGAAGCGUCAGCUUGUCUAUGUCCUCCACGGGCACGUCUGUUCCUGCCACGCCCAACAGACGCGCCCUUCGAU
-(-(((.......(((((.((((....)))).))))))))).....((((.((((((((...((...))..)))))))).))))...... ( -34.61)
>DroGri_CAF1 163907 88 - 1
U--CGCAAACCUUAUAGGGCAGCGUUAGCUUAUCAAUGUCCUCCACAGGCACAUCCGUGCCAGCCACACCCAGCAGCCGAGCUCUCCGUC
.--.............(((.(((.(..(((.................(((((....))))).((........)))))..)))).)))... ( -20.00)
>DroMoj_CAF1 248009 90 - 1
UGACACCUACCUUGUAAGGCAAUGUCAAUUUGUCUAUAUCCUCGACGGGCACAUCUGUGCCGGCUACGCCCAGGAGACGUGCCCGUCUUU
(((((....(((....)))...)))))................(((((((((.(((.(...(((...)))..).))).)))))))))... ( -31.50)
>DroAna_CAF1 148210 84 - 1
------GUACCUUGUAGGGCAAUGUCAGCUUGUCUAUAUCUUCCACGGGCACAUCUGUCCCAGCGACUCCCAACAGACGUGCCCUCCGGU
------..(((.....((((((.(....)))))))...........((((((.(((((..............))))).))))))...))) ( -23.44)
>DroPer_CAF1 228891 88 - 1
-G-GACUCACCUUGUAGGGAAGCGUCAGCUUGUCUAUGUCCUCCACGGGCACGUCUGUUCCUGCCACGCCCAACAGACGCGCCCUUCGAU
-(-(((.......(((((.((((....)))).))))))))).....((((.((((((((...((...))..)))))))).))))...... ( -34.61)
>consensus
_G_CACCCACCUUGUAGGGCAGCGUCAGCUUGUCUAUAUCCUCCACGGGCACAUCUGUUCCAGCCACGCCCAACAGACGUGCCCUCCGAU
............((((((..(((....)))..))))))........((((.(.(((((..............))))).).))))...... (-12.53 = -12.51 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:38 2006