Locus 7106

Sequence ID 3L_DroMel_CAF1
Location 19,160,295 – 19,160,396
Length 101
Max. P 0.647109
window11528 window11529

overview

Window 8

Location 19,160,295 – 19,160,396
Length 101
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.48
Mean single sequence MFE -29.13
Consensus MFE -15.93
Energy contribution -16.18
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -2.90
Structure conservation index 0.55
SVM decision value 0.05
SVM RNA-class probability 0.557158
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19160295 101 + 23771897
GCGCCUUU------------UUGUAUCUG-------CGAGAUACAAAUCAUGCAGAUACUUUUACCGCCACACUUUGCUCUUGCGAAAUCAGCAAAAUGGGCUUGCCAAUACACUCGCAC
(((.....------------..(((((((-------((.(((....))).))))))))).......(((.((.((((((..(.....)..)))))).))))).............))).. ( -29.50)
>DroSec_CAF1 23292 101 + 1
GCGCCUUU------------UUGUAUCUG-------CGAGAUACAAAUCAUGCAGAUACUUUUUCCGCCACACUUUGCUCUUGCGAAAUCAGCAAAAUGGGCUUGCCAAUAUACUCGCAC
(((.....------------..(((((((-------((.(((....))).))))))))).......(((.((.((((((..(.....)..)))))).))))).............))).. ( -29.50)
>DroAna_CAF1 16036 110 + 1
GCGCCUUUUACCGCGCACAUUUGUAUCUGCUGGAUGCGAGAUACAAAUCUUGCAGAU----UUCUCGCUACGCUUCGGUUUUGCGAAAUCAGCAA-AUGGGUUUGCCAAUACCA-----G
((((........)))).(((((((..........((((((((....))))))))(((----(..((((...((....))...)))))))).))))-)))(((........))).-----. ( -35.60)
>DroSim_CAF1 22839 101 + 1
GCGCCUUU------------UUGUAUCUG-------CGAGAUACAAAUCAUGCAGAUACUUUUUCCGCCACACUUUGCUCUUGCGAAAUCAGCAAAAUGGGCUUGCCAAUAUACUAGCAG
((......------------..(((((((-------((.(((....))).))))))))).......(((.((.((((((..(.....)..)))))).)))))..............)).. ( -28.50)
>DroEre_CAF1 23787 101 + 1
GCGCCUUU------------UUGUAUCUG-------CGAGAUACAAAUCAUGCAGAUACUUUUUCCGCCACACUUUGCUCUUGCGAAAUCAGCAAAAUGGGCUUGCCAAUACCCAUACCA
((......------------..(((((((-------((.(((....))).))))))))).......(((.((.((((((..(.....)..)))))).)))))..)).............. ( -27.40)
>DroYak_CAF1 23742 101 + 1
GCGCCUUU------------UUGUAUCUG-------CGAAAUACAAAUCAUGCAGAUACUUUUGCCGCCACACUUUGCUCUUGCGAAAUCAGCAAAAUGGGCUUGCCAAUACCGAUACCA
((((....------------..(((((((-------((..((....))..)))))))))....)).(((.((.((((((..(.....)..)))))).)))))..)).............. ( -24.30)
>consensus
GCGCCUUU____________UUGUAUCUG_______CGAGAUACAAAUCAUGCAGAUACUUUUUCCGCCACACUUUGCUCUUGCGAAAUCAGCAAAAUGGGCUUGCCAAUACACUCGCAA
((..................((((((((..........))))))))....................(((.((.((((((..(.....)..)))))).)))))..)).............. (-15.93 = -16.18 +   0.25)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,160,295 – 19,160,396
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.48
Mean single sequence MFE -34.45
Consensus MFE -19.58
Energy contribution -20.77
Covariance contribution 1.20
Combinations/Pair 1.04
Mean z-score -3.02
Structure conservation index 0.57
SVM decision value 0.24
SVM RNA-class probability 0.647109
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19160295 101 - 23771897
GUGCGAGUGUAUUGGCAAGCCCAUUUUGCUGAUUUCGCAAGAGCAAAGUGUGGCGGUAAAAGUAUCUGCAUGAUUUGUAUCUCG-------CAGAUACAA------------AAAGGCGC
((((..............(((((((((((.....((....)))))))))).))).......((((((((..(((....)))..)-------)))))))..------------....)))) ( -35.80)
>DroSec_CAF1 23292 101 - 1
GUGCGAGUAUAUUGGCAAGCCCAUUUUGCUGAUUUCGCAAGAGCAAAGUGUGGCGGAAAAAGUAUCUGCAUGAUUUGUAUCUCG-------CAGAUACAA------------AAAGGCGC
((((..............(((((((((((.....((....)))))))))).))).......((((((((..(((....)))..)-------)))))))..------------....)))) ( -35.80)
>DroAna_CAF1 16036 110 - 1
C-----UGGUAUUGGCAAACCCAU-UUGCUGAUUUCGCAAAACCGAAGCGUAGCGAGAA----AUCUGCAAGAUUUGUAUCUCGCAUCCAGCAGAUACAAAUGUGCGCGGUAAAAGGCGC
.-----.((.((..(((((....)-))))..)).))((...(((...(((((((((...----.)).))...((((((((((.((.....)))))))))))).)))))))).....)).. ( -34.00)
>DroSim_CAF1 22839 101 - 1
CUGCUAGUAUAUUGGCAAGCCCAUUUUGCUGAUUUCGCAAGAGCAAAGUGUGGCGGAAAAAGUAUCUGCAUGAUUUGUAUCUCG-------CAGAUACAA------------AAAGGCGC
.((((((....)))))).(((((((((((.....((....)))))))))).))).......((((((((..(((....)))..)-------)))))))..------------........ ( -35.70)
>DroEre_CAF1 23787 101 - 1
UGGUAUGGGUAUUGGCAAGCCCAUUUUGCUGAUUUCGCAAGAGCAAAGUGUGGCGGAAAAAGUAUCUGCAUGAUUUGUAUCUCG-------CAGAUACAA------------AAAGGCGC
..............((..(((((((((((.....((....)))))))))).))).......((((((((..(((....)))..)-------)))))))..------------....)).. ( -33.60)
>DroYak_CAF1 23742 101 - 1
UGGUAUCGGUAUUGGCAAGCCCAUUUUGCUGAUUUCGCAAGAGCAAAGUGUGGCGGCAAAAGUAUCUGCAUGAUUUGUAUUUCG-------CAGAUACAA------------AAAGGCGC
..............((..(((((((((((.....((....)))))))))).))).......((((((((..(((....)))..)-------)))))))..------------....)).. ( -31.80)
>consensus
CUGCAAGGGUAUUGGCAAGCCCAUUUUGCUGAUUUCGCAAGAGCAAAGUGUGGCGGAAAAAGUAUCUGCAUGAUUUGUAUCUCG_______CAGAUACAA____________AAAGGCGC
..............((..(((((((((((.....((....)))))))))).))).......(((((((.......((.....)).......)))))))..................)).. (-19.58 = -20.77 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:00 2006