Locus 3883

Sequence ID X_DroMel_CAF1
Location 10,343,737 – 10,343,846
Length 109
Max. P 0.557428
window6381

overview

Window 1

Location 10,343,737 – 10,343,846
Length 109
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 79.87
Mean single sequence MFE -42.67
Consensus MFE -27.92
Energy contribution -27.40
Covariance contribution -0.52
Combinations/Pair 1.35
Mean z-score -1.34
Structure conservation index 0.65
SVM decision value 0.05
SVM RNA-class probability 0.557428
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10343737 109 - 22224390
CAGGCGA------GCACUUUUCAGACAUUCGCCAAGCGAUUGUCGCCGGAGGGCGAGUGUAAGGACACGCUGUCCUCGCAGGGAUCCUCUUCUAACGAUAGUCGCUGGCCGCC-GC-
..((((.------..........(.....)((((.((((((((((..((((((.((.((..(((((.....)))))..))....)).))))))..))))))))))))))))))-..- ( -46.10)
>DroVir_CAF1 8886 116 - 1
CAGGCCAGCACCAGCACGUUCCAGACCUUCGCCAAGCGUCUGUCGCCCGAGGGCGAGUGCAAAGAUACGCUCUCCUCGCAGGGCUCCUCCUCCAAUGACAGUCGCUGGCAGUC-ACA
...((((((....((((....((((((((....))).)))))(((((....)))))))))........(((((......)))))...................))))))....-... ( -41.60)
>DroGri_CAF1 8189 116 - 1
CAGGCCAGCACCAGCACGUUCCAGACCUUUGCAAAGCGUCUAUCGCCCGAAGGCGAGUGCAAGGAUACGCUCUCAUCGCAAGGCUCCUCCUCCAAUGAUAGCCGCUGGCAAUC-UCA
...((((((.((.((((.....(((((((....))).)))).(((((....)))))))))..))....(((.((((.(..(((.....))).).)))).))).))))))....-... ( -39.50)
>DroWil_CAF1 7084 109 - 1
CAAUCGA------GCACGUUCCAGACAUUUGCCAAGCGUCUGUCACCGGAGGGGGAAUGCAAGGAUACCAUCUCAUCGCAGGGCUCCUCCUCGACGGACAGUCGCUGGCAAUC-GA-
...((((------....(((...)))..((((((.(((.(((((....((((((((.(((...((.......))...)))....))))))))....))))).)))))))))))-))- ( -41.70)
>DroMoj_CAF1 7899 116 - 1
CAGGCCAGCACCAGCACGUUCCAGACCUUCGCCAAGCGCCUGUCGCCCGAGGGCGAGUGCAAGGAUACGCUCUCAUCGCAGGGCUCCUCCUCGAACGACAGUCGCUGGCAGUC-GCA
...((..((....))........(((....((((.(((.((((((..((((((.((((.(..(....)((.......)).).)))).))))))..)))))).))))))).)))-)). ( -44.30)
>DroAna_CAF1 8401 110 - 1
CCCGGUU------CCACGUUCCAGACCUUCGCCAAGCGACUGUCGCCGGAGGGCGAGUGCAAGGACACCCUCUCCUCGCAGGGCUCCUCCUCGAACGAUGGCCGCUGGCCGGUGGC-
.((((((------((((((((..(((..((((...))))..)))...(((((((...(((.((((.......)))).)))..)).)))))..))))).))).....))))))....- ( -42.80)
>consensus
CAGGCCA______GCACGUUCCAGACCUUCGCCAAGCGUCUGUCGCCCGAGGGCGAGUGCAAGGAUACGCUCUCAUCGCAGGGCUCCUCCUCGAACGACAGUCGCUGGCAGUC_GC_
..............................((((.(((.(((((((..(((((((.((......)).)))))))...)).(((.....))).....))))).)))))))........ (-27.92 = -27.40 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:58 2006