Locus 7055

Sequence ID 2L_DroMel_CAF1
Location 19,731,732 – 19,731,913
Length 181
Max. P 0.997461
window11252 window11253

overview

Window 2

Location 19,731,732 – 19,731,840
Length 108
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 70.47
Mean single sequence MFE -24.92
Consensus MFE -7.26
Energy contribution -9.52
Covariance contribution 2.25
Combinations/Pair 1.24
Mean z-score -2.03
Structure conservation index 0.29
SVM decision value 0.14
SVM RNA-class probability 0.604866
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19731732 108 + 22407834
CUGCGGCUCCAUCUUGAUCUUGAUGUCCUCCAUGUCAAUUUCCCCCUUGGCCAGCGCCAAAUUCGCGAGAAUU--CCGUUCUGAUC-----AGAGGAUAUCAGAUCAACAACUAU
.............(((((((.(((((((((...(((((........)))))(((.((..(((((....)))))--..)).)))...-----.))))))))))))))))....... ( -34.00)
>DroPse_CAF1 5529 98 + 1
UUCCCCCUCCAGCUUGAUCGUGGUGUCAUCAAUGUCGAUUUCCUCUUUAAUUAUACUCAAAUCCACAUGCAUUUUCCGUUCUUUUUGCUUUUGAGGAU-----------------
.....((((.(((..((.((.(((((.....((((.(((((.................))))).)))))))))...)).)).....)))...))))..----------------- ( -14.23)
>DroSec_CAF1 2920 108 + 1
CUGCGGCUCCAACUUGAUCUUGAUGUCCUCCAUGUCAAUCUCACCCUUGGUCAGCGCCAAAUUCGAGUGAAUU--CCGUUCUGAUC-----AGAGGAUAUCAAAUCAACAACUAU
.............(((((.(((((((((((..((.......))....(((((((.((..(((((....)))))--..)).))))))-----)))))))))))))))))....... ( -29.70)
>DroSim_CAF1 2892 108 + 1
CUGCGGCUCCAACUUGAUCUUGAUGUCCUCCAUGUCAAUCUCACCCGUGGUCAGCGCCAAAUUCGCGUGAAUU--CCGUUCUGAUC-----AGAGGAUAUCAAAUCAACAACUAU
.............(((((.(((((((((((..((.......))....(((((((.((..(((((....)))))--..)).))))))-----)))))))))))))))))....... ( -29.70)
>DroYak_CAF1 4129 108 + 1
CUGCGGCUCUAGCUUGAUCUUGGUGUCCUCCAUGUCUAUCUCUCCCUUGGCCAGCGCCAAAUUCGCCUGCAUU--UCGGUCCGAUC-----AGAGGAAAUCAGAUCAACAACUAU
....(((....)))((((((.(((.(((((...(((..........(((((....)))))....(((......--..)))..))).-----.))))).)))))))))........ ( -26.40)
>DroPer_CAF1 6053 98 + 1
UUCCCCCUCCAGCUUGAUCGUGGUGUCAUCAAUGUCGAUUUCCUCUUUAAUUAUACUCAAAUCCACAUGCAUUUCCCGUUCUUUUUGCUUUUGAGGAU-----------------
.....((((.(((..((.((.((........((((.(((((.................))))).))))......)))).)).....)))...))))..----------------- ( -15.47)
>consensus
CUGCGGCUCCAGCUUGAUCUUGAUGUCCUCCAUGUCAAUCUCCCCCUUGGUCAGCGCCAAAUUCGCGUGAAUU__CCGUUCUGAUC_____AGAGGAUAUCA_AUCAACAACUAU
...................(((((((((((................(((((....)))))...(....).......................)))))))))))............ ( -7.26 =  -9.52 +   2.25)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,731,805 – 19,731,913
Length 108
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 93.13
Mean single sequence MFE -29.48
Consensus MFE -28.39
Energy contribution -28.19
Covariance contribution -0.20
Combinations/Pair 1.09
Mean z-score -1.79
Structure conservation index 0.96
SVM decision value 2.86
SVM RNA-class probability 0.997461
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19731805 108 - 22407834
UAUCGAUAGUCGUCUUCUGAUCGCAGCGGUAUACAGCGGUAUUUAUUGCGCUGCUGCUCUCU---UCUUUAUAUUGAUAGUUGUUGAUCUGAUAUCCUCUGAUCAGAACGG
((((((((...(((....))).((((((((.....(((((....))))))))))))).....---......))))))))(((.((((((.((.....)).))))))))).. ( -29.70)
>DroSec_CAF1 2993 108 - 1
UAUCGAUAUACGUCUUCUGAUCGCAGCGGUAUACAGCGGUAUUUAUUGCGCUGCUGCUCUCU---UUUAUAUAUUGAUAGUUGUUGAUUUGAUAUCCUCUGAUCAGAACGG
((((((((((.(((....))).((((((((.....(((((....))))))))))))).....---....))))))))))(((.((((((.((.....)).))))))))).. ( -30.00)
>DroSim_CAF1 2965 108 - 1
UAUCGAUAGUCGUCUUCUGAUCGCAGCGGUAUACAGCGGUAUUUAUUGCGCUGCUGCUCUCU---UUUAUAUAUUGAUAGUUGUUGAUUUGAUAUCCUCUGAUCAGAACGG
..........(((..(((((((((((((((.....(((((....))))))))))))).....---..(((..((..((....))..))...)))......)))))))))). ( -28.50)
>DroEre_CAF1 4209 111 - 1
UAUCGAUAGUCGUCUUCUGAUCGCAGCGGUAUACAGCGGUAUUUAUUGCGCUGCUGCUCUCUUCUUCUUGAUAUUGAUAGUUGUUGAUCUGAUAUCCUCUGAUCGGAGCGA
.........((((..(((((((((((((((.....(((((....)))))))))))))............(((((((((........))).))))))....))))))))))) ( -31.80)
>DroYak_CAF1 4202 108 - 1
UUUCGAUAGUCCUCUUCUGAUCGCAGCGGUAUACAGCGGUAUUUAUUGCGCUGCUGCUCUCU---UCUUGAUAUUGAUAGUUGUUGAUCUGAUUUCCUCUGAUCGGACCGA
..(((...((((......((((((((((((.....(((((....))))))))))))).....---....((((........)))))))).((((......))))))))))) ( -27.40)
>consensus
UAUCGAUAGUCGUCUUCUGAUCGCAGCGGUAUACAGCGGUAUUUAUUGCGCUGCUGCUCUCU___UCUUUAUAUUGAUAGUUGUUGAUCUGAUAUCCUCUGAUCAGAACGG
((((((((..........((..((((((((.....(((((....)))))))))))))..))..........))))))))(((.((((((.((.....)).))))))))).. (-28.39 = -28.19 +  -0.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:15 2006