Locus 3653

Sequence ID 2L_DroMel_CAF1
Location 10,616,292 – 10,616,402
Length 110
Max. P 0.727480
window5763 window5764

overview

Window 3

Location 10,616,292 – 10,616,402
Length 110
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 91.72
Mean single sequence MFE -31.35
Consensus MFE -25.91
Energy contribution -26.13
Covariance contribution 0.22
Combinations/Pair 1.08
Mean z-score -2.09
Structure conservation index 0.83
SVM decision value 0.42
SVM RNA-class probability 0.727480
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10616292 110 + 22407834
UGUGCGCCGUAAGAAGAGCAUCAACAACUCAAUC-GCCAAAGCCACGUGUUGCAUGUGCAACACGAAAUGGCUGUAAAUAUUAUUUAUGUGCGUUAAUGCCAAACACCAUA
...((((((((((..(((.........)))....-.....(((((((((((((....))))))))...)))))..........)))))).))))................. ( -29.50)
>DroSec_CAF1 95845 103 + 1
UGUGCGCCGUAAGAAGAGCAUCAACAACUCAAUC-GCCAGGGCCACGUGUUGCAUGUGCAACACGAAAUGGCUGUAAAUAUUAUUUAUGUGCGUUAAUGC-------CAUA
...((((((((((..(((.........)))....-...(.(((((((((((((....))))))))...))))).)........)))))).))))......-------.... ( -29.90)
>DroSim_CAF1 96325 110 + 1
UGUGCGCCGUAAGAAGAGCAUCAACAACUCAAUU-GCCAGGGCCACGUGUUGCAUGUGCAACACGAAAUGGCUGUAAAUAUUAUUUAUGUGCGUUAAUGCCAAACACCAUA
...((((((((((..(((.........)))..((-((...(((((((((((((....))))))))...)))))))))......)))))).))))................. ( -30.30)
>DroEre_CAF1 96521 110 + 1
UGUGGGCCGUAAGAAGAGCAUUAACAACUCAAUC-GCCAGGGCCACGUGUUGCAUGUGCAACACGAAAAGGCUGUAAAUAUUAUUUAUGUGCGUUAAUGCCAAACACCAUA
(((((..(....)..(.((((((((.........-.....((((.((((((((....))))))))....))))(((.(((.....))).)))))))))))).....))))) ( -34.20)
>DroYak_CAF1 99366 110 + 1
UGUGCGCCGUAAGCAGAGCAUCAACAACUCAAUC-GCCAGGGCCACGUGUUGCAUGUGCAGCACGAAAUGGCUGUAAAUAUUAUUUAUGUGCGUUAAUGCCAAACACCGUA
..(((.......)))(.((((.(((.........-.....(((((((((((((....))))))))...)))))(((.(((.....))).)))))).))))).......... ( -29.80)
>DroAna_CAF1 97826 111 + 1
GCUGGUCUGCAAGACGAGCACCUACAACUCAAUGGGCCAGGGCCACGUGUUGCAUGUGCAACACGAAAUGGCUGUAAAUAAUAUUUAUGUGCGUUAAUGCCAAACACCAUA
(((.(((.....))).)))............((((...(.(((((((((((((....))))))))...))))).)............((.(((....)))))....)))). ( -34.40)
>consensus
UGUGCGCCGUAAGAAGAGCAUCAACAACUCAAUC_GCCAGGGCCACGUGUUGCAUGUGCAACACGAAAUGGCUGUAAAUAUUAUUUAUGUGCGUUAAUGCCAAACACCAUA
.................((((.(((...............(((((((((((((....))))))))...)))))(((.(((.....))).)))))).))))........... (-25.91 = -26.13 +   0.22)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 10,616,292 – 10,616,402
Length 110
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 91.72
Mean single sequence MFE -31.58
Consensus MFE -26.19
Energy contribution -26.58
Covariance contribution 0.39
Combinations/Pair 1.07
Mean z-score -1.79
Structure conservation index 0.83
SVM decision value 0.06
SVM RNA-class probability 0.563641
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10616292 110 - 22407834
UAUGGUGUUUGGCAUUAACGCACAUAAAUAAUAUUUACAGCCAUUUCGUGUUGCACAUGCAACACGUGGCUUUGGC-GAUUGAGUUGUUGAUGCUCUUCUUACGGCGCACA
(((((((((.......))))).)))).............(((....((((((((....)))))))).(((.(..((-(((...)))))..).)))........)))..... ( -31.90)
>DroSec_CAF1 95845 103 - 1
UAUG-------GCAUUAACGCACAUAAAUAAUAUUUACAGCCAUUUCGUGUUGCACAUGCAACACGUGGCCCUGGC-GAUUGAGUUGUUGAUGCUCUUCUUACGGCGCACA
...(-------(((((((((.((.(((((...)))))..((((...((((((((....))))))))......))))-......))))))))))))................ ( -28.90)
>DroSim_CAF1 96325 110 - 1
UAUGGUGUUUGGCAUUAACGCACAUAAAUAAUAUUUACAGCCAUUUCGUGUUGCACAUGCAACACGUGGCCCUGGC-AAUUGAGUUGUUGAUGCUCUUCUUACGGCGCACA
....(((((.((((((((((.((.(((((...)))))..((((...((((((((....))))))))......))))-......))))))))))))........)))))... ( -30.90)
>DroEre_CAF1 96521 110 - 1
UAUGGUGUUUGGCAUUAACGCACAUAAAUAAUAUUUACAGCCUUUUCGUGUUGCACAUGCAACACGUGGCCCUGGC-GAUUGAGUUGUUAAUGCUCUUCUUACGGCCCACA
(((((((((.......))))).)))).....................(((((((....)))))))((((((.(((.-((..((((.......)))).))))).)).)))). ( -30.80)
>DroYak_CAF1 99366 110 - 1
UACGGUGUUUGGCAUUAACGCACAUAAAUAAUAUUUACAGCCAUUUCGUGCUGCACAUGCAACACGUGGCCCUGGC-GAUUGAGUUGUUGAUGCUCUGCUUACGGCGCACA
....((((..((((((((((.((.(((((...)))))..((((...((((.(((....))).))))......))))-......))))))))))))..((.....)))))). ( -29.80)
>DroAna_CAF1 97826 111 - 1
UAUGGUGUUUGGCAUUAACGCACAUAAAUAUUAUUUACAGCCAUUUCGUGUUGCACAUGCAACACGUGGCCCUGGCCCAUUGAGUUGUAGGUGCUCGUCUUGCAGACCAGC
(((((((((.......))))).))))......(((((((((((...((((((((....)))))))).(((....)))...)).)))))))))(((.(((.....))).))) ( -37.20)
>consensus
UAUGGUGUUUGGCAUUAACGCACAUAAAUAAUAUUUACAGCCAUUUCGUGUUGCACAUGCAACACGUGGCCCUGGC_GAUUGAGUUGUUGAUGCUCUUCUUACGGCGCACA
..........((((((((((.((.(((((...)))))..((((...((((((((....)))))))))))).............))))))))))))................ (-26.19 = -26.58 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:51 2006