Locus 7060

Sequence ID 2L_DroMel_CAF1
Location 19,764,957 – 19,765,054
Length 97
Max. P 0.903273
window11259 window11260

overview

Window 9

Location 19,764,957 – 19,765,054
Length 97
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.18
Mean single sequence MFE -34.67
Consensus MFE -19.44
Energy contribution -18.67
Covariance contribution -0.78
Combinations/Pair 1.18
Mean z-score -1.81
Structure conservation index 0.56
SVM decision value 0.19
SVM RNA-class probability 0.625186
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19764957 97 + 22407834
--------ACCGCGCGCGCGCUUAUGUUGUUUGCUCGUUGACGGUCGCGUUGAGUUUGCGGCAAUCACCGCACAUCAACCAGCAAAUUGCUCUAAACGAGCUGC---------------C
--------...(((....))).......((..(((((((.......(.(((((...(((((......)))))..))))))(((.....)))...))))))).))---------------. ( -29.70)
>DroVir_CAF1 33703 105 + 1
CCGUUGCCGCUGCCGUCGCGCUUAUGUUGUUUACUCGUUGACGGUCGCGUUGAGUUUGCGGCAAUCACCGCACAUCAACCAGCAAAUCGCUCUAAGCGAUGCUC---------------C
..((((..((.(((((((((..((.......))..)).))))))).))(((((...(((((......)))))..)))))))))..(((((.....)))))....---------------. ( -36.70)
>DroGri_CAF1 31720 97 + 1
--------GCUGCCGUCGCGCGUAGGUUGUUUACUCGUUGACGGUCGCGUUGAGUUUGCGGCAAUCACCGCACAUCAACCAGCAAAUCGCUCUAAGCGAUGUCC---------------C
--------((.(((((((((.((((.....)))).)).))))))).))(((((...(((((......)))))..)))))......(((((.....)))))....---------------. ( -36.70)
>DroWil_CAF1 41090 100 + 1
--------GCGA----CAAUUUGAUGUUGUUUACUCGUUGACGGUCGCGUUGAGUUUGUGGCAAUCACCGCACAUCAACCAGCAAAUCGCUCUAAACGAGCAGA-GC-------GCUUCC
--------((((----(...(..(((.........)))..)..)))))(((((...(((((......)))))..))))).(((...((((((.....)))).))-..-------)))... ( -30.30)
>DroMoj_CAF1 35241 94 + 1
-----------GCCGUCGCGCUUAUGUUGUUUGCUCGUUGACGGUCGCGUUGAGUUUGCGGCAAUCACCGCACAUCAACCAGCAAAUCGCUAUAAGCGAUGUCC---------------C
-----------...(.(((((((((((.(((((((((....))...(.(((((...(((((......)))))..))))))))))))).)).))))))).)).).---------------. ( -31.80)
>DroAna_CAF1 30344 108 + 1
--------GCUGC----GCGCUUAUGUUGUUUGCUCGUUGACGGUCGCGUUGAGUUUGCGGCAAUCACCGCACAUCAACCAGCAAAUUGCUCCAAACGAGCAGCAGCACCAGCAGCAUCC
--------(((((----.......(((((((.(((((((...((..(.(((((...(((((......)))))..))))))(((.....))))).))))))))))))))...))))).... ( -42.80)
>consensus
________GCUGCCGUCGCGCUUAUGUUGUUUACUCGUUGACGGUCGCGUUGAGUUUGCGGCAAUCACCGCACAUCAACCAGCAAAUCGCUCUAAACGAGCUGC_______________C
..........................(((((((...((.....((.(.(((((...(((((......)))))..)))))).)).....))..)))))))..................... (-19.44 = -18.67 +  -0.78)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,764,957 – 19,765,054
Length 97
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.18
Mean single sequence MFE -36.25
Consensus MFE -26.56
Energy contribution -26.62
Covariance contribution 0.06
Combinations/Pair 1.15
Mean z-score -1.81
Structure conservation index 0.73
SVM decision value 1.03
SVM RNA-class probability 0.903273
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19764957 97 - 22407834
G---------------GCAGCUCGUUUAGAGCAAUUUGCUGGUUGAUGUGCGGUGAUUGCCGCAAACUCAACGCGACCGUCAACGAGCAAACAACAUAAGCGCGCGCGCGGU--------
.---------------((.((.((((((......((((((.(((((((((((((....))))))...((.....)).))))))).)))))).....)))))).))..))...-------- ( -37.00)
>DroVir_CAF1 33703 105 - 1
G---------------GAGCAUCGCUUAGAGCGAUUUGCUGGUUGAUGUGCGGUGAUUGCCGCAAACUCAACGCGACCGUCAACGAGUAAACAACAUAAGCGCGACGGCAGCGGCAACGG
.---------------.((((((((.....))))..)))).(((((..((((((....))))))...)))))((..(((((..((..((.......))..)).)))))..))(....).. ( -37.90)
>DroGri_CAF1 31720 97 - 1
G---------------GGACAUCGCUUAGAGCGAUUUGCUGGUUGAUGUGCGGUGAUUGCCGCAAACUCAACGCGACCGUCAACGAGUAAACAACCUACGCGCGACGGCAGC--------
(---------------(.(.(((((.....))))).).)).(((((..((((((....))))))...)))))((..(((((..((.(((.......))).)).)))))..))-------- ( -35.20)
>DroWil_CAF1 41090 100 - 1
GGAAGC-------GC-UCUGCUCGUUUAGAGCGAUUUGCUGGUUGAUGUGCGGUGAUUGCCACAAACUCAACGCGACCGUCAACGAGUAAACAACAUCAAAUUG----UCGC--------
.((..(-------((-((((......))))))).((((((.(((((((((((.(((((......)).))).))))..))))))).)))))).....))......----....-------- ( -30.20)
>DroMoj_CAF1 35241 94 - 1
G---------------GGACAUCGCUUAUAGCGAUUUGCUGGUUGAUGUGCGGUGAUUGCCGCAAACUCAACGCGACCGUCAACGAGCAAACAACAUAAGCGCGACGGC-----------
.---------------......(((((((...(.((((((.(((((((((((((....))))))...((.....)).))))))).)))))))...))))))).......----------- ( -32.20)
>DroAna_CAF1 30344 108 - 1
GGAUGCUGCUGGUGCUGCUGCUCGUUUGGAGCAAUUUGCUGGUUGAUGUGCGGUGAUUGCCGCAAACUCAACGCGACCGUCAACGAGCAAACAACAUAAGCGC----GCAGC--------
....(((((..(((((..(((((.....))))).((((((.(((((((((((((....))))))...((.....)).))))))).)))))).......)))))----)))))-------- ( -45.00)
>consensus
G_______________GCACAUCGCUUAGAGCGAUUUGCUGGUUGAUGUGCGGUGAUUGCCGCAAACUCAACGCGACCGUCAACGAGCAAACAACAUAAGCGCGACGGCAGC________
......................((((((......((((((.(((((((((((((....))))))...((.....)).))))))).)))))).....)))))).................. (-26.56 = -26.62 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:21 2006