Locus 8211

Sequence ID 3R_DroMel_CAF1
Location 22,038,879 – 22,038,978
Length 99
Max. P 0.886501
window13220 window13221

overview

Window 0

Location 22,038,879 – 22,038,978
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.26
Mean single sequence MFE -28.47
Consensus MFE -20.46
Energy contribution -21.68
Covariance contribution 1.22
Combinations/Pair 1.21
Mean z-score -2.29
Structure conservation index 0.72
SVM decision value 0.94
SVM RNA-class probability 0.886501
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22038879 99 + 27905053
UUAUCGCGAGAUAAGCUACUGGUCACUUUCUAAUCACGGCCAAGUGAUUUGGCAU-------------UACCUUUGAGGCUUUAUGUGUGUCAAAGUUGGCCUCAUCUAUCA--------
(((((....)))))(((..(((((.............))))))))(((..(((..-------------...((((((.((.......)).))))))...)))..))).....-------- ( -25.92)
>DroSec_CAF1 37089 99 + 1
UUAUCGCGAGAUAAGCCACUGGCCACUUUCUAAUCAGGGCCAAGUAACUUGGCAU-------------UACCUUUGAGGCUUUAUGUGUGUCAAAGUUGGCCUCAUCUAUCA--------
(((((....)))))......(((((.............((((((...))))))..-------------...((((((.((.......)).)))))).)))))..........-------- ( -30.10)
>DroSim_CAF1 29512 99 + 1
UUAUCGCGAGAUAAGCCACUGGCCACUUUCUAAUCAGGGCCAAGUGAUUUGGCAU-------------UACCUUUGAGGCUUUAUGUGUGUCAAAGUUGGCCUCAUCUAUCA--------
(((((....)))))..((((((((.((........)))))).))))....(((..-------------...((((((.((.......)).))))))...)))..........-------- ( -30.40)
>DroEre_CAF1 31040 99 + 1
UUAUCGCAAGAUAAGCCACUGGCCACUUUCUAAUCGCGGCCAAGUGAUUUGGCAU-------------UACCUUUGAGGCUUUCUGUGUGUCAAAGUUGGCCUCAUCUAUCA--------
(((((....)))))..((((((((.(.........).)))).))))....(((..-------------...((((((.((.......)).))))))...)))..........-------- ( -30.20)
>DroYak_CAF1 38831 99 + 1
UUAUCGCGAAAUAAGCCACUGGCCACUUUCUAAUCACGGCCAAGUGAUUUGGCAU-------------UACCUUUGAGACUUUCUGUGUGUCAAUGUUGGCCUCAUCUAUCA--------
.....((.......))((((((((.............)))).))))....(((..-------------.((..((((.((.......)).)))).))..)))..........-------- ( -22.52)
>DroPer_CAF1 122202 114 + 1
UUAUCUCAG-----UGCUGUGGCCACUUUCUAAUCAUGGCCA-GUACUUAUGUACUUUUCGCUUGGGACAUGAUUGAGGCUUUCUCCAUGUCAAUGUUGGCCUCAUCUAUCACUCUCUCU
...((((((-----.((..((((((...........))))))-((((....)))).....))))))))..(((((((((((.....(((....)))..)))))))...))))........ ( -31.70)
>consensus
UUAUCGCGAGAUAAGCCACUGGCCACUUUCUAAUCACGGCCAAGUGAUUUGGCAU_____________UACCUUUGAGGCUUUAUGUGUGUCAAAGUUGGCCUCAUCUAUCA________
(((((....)))))......(((((.............((((((...))))))..................((((((.((.......)).)))))).))))).................. (-20.46 = -21.68 +   1.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 22,038,879 – 22,038,978
Length 99
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.26
Mean single sequence MFE -26.33
Consensus MFE -17.23
Energy contribution -17.48
Covariance contribution 0.25
Combinations/Pair 1.33
Mean z-score -1.57
Structure conservation index 0.65
SVM decision value 0.13
SVM RNA-class probability 0.599469
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22038879 99 - 27905053
--------UGAUAGAUGAGGCCAACUUUGACACACAUAAAGCCUCAAAGGUA-------------AUGCCAAAUCACUUGGCCGUGAUUAGAAAGUGACCAGUAGCUUAUCUCGCGAUAA
--------.......((((((......((.....))....))))))......-------------..(((((.....)))))(((((...((((((........)))).))))))).... ( -20.00)
>DroSec_CAF1 37089 99 - 1
--------UGAUAGAUGAGGCCAACUUUGACACACAUAAAGCCUCAAAGGUA-------------AUGCCAAGUUACUUGGCCCUGAUUAGAAAGUGGCCAGUGGCUUAUCUCGCGAUAA
--------.(..(((((((((...((((((..(.......)..))))))...-------------..)))..((((((.((((((........)).))))))))))))))))..)..... ( -28.20)
>DroSim_CAF1 29512 99 - 1
--------UGAUAGAUGAGGCCAACUUUGACACACAUAAAGCCUCAAAGGUA-------------AUGCCAAAUCACUUGGCCCUGAUUAGAAAGUGGCCAGUGGCUUAUCUCGCGAUAA
--------.......((((((......((.....))....)))))).(((((-------------(.((((......((((((((........)).))))))))))))))))........ ( -26.90)
>DroEre_CAF1 31040 99 - 1
--------UGAUAGAUGAGGCCAACUUUGACACACAGAAAGCCUCAAAGGUA-------------AUGCCAAAUCACUUGGCCGCGAUUAGAAAGUGGCCAGUGGCUUAUCUUGCGAUAA
--------.......((((((....((((.....))))..))))))((((((-------------(.((((......((((((((.........)))))))))))))))))))....... ( -32.40)
>DroYak_CAF1 38831 99 - 1
--------UGAUAGAUGAGGCCAACAUUGACACACAGAAAGUCUCAAAGGUA-------------AUGCCAAAUCACUUGGCCGUGAUUAGAAAGUGGCCAGUGGCUUAUUUCGCGAUAA
--------.....((..((((((...((((.((.......)).)))).((..-------------...)).......(((((((...........)))))))))))))...))....... ( -21.40)
>DroPer_CAF1 122202 114 - 1
AGAGAGAGUGAUAGAUGAGGCCAACAUUGACAUGGAGAAAGCCUCAAUCAUGUCCCAAGCGAAAAGUACAUAAGUAC-UGGCCAUGAUUAGAAAGUGGCCACAGCA-----CUGAGAUAA
.(.((..(((((...((((((...(((....)))......))))))))))).)).)..((....(((((....))))-)((((((.........))))))...)).-----......... ( -29.10)
>consensus
________UGAUAGAUGAGGCCAACUUUGACACACAGAAAGCCUCAAAGGUA_____________AUGCCAAAUCACUUGGCCGUGAUUAGAAAGUGGCCAGUGGCUUAUCUCGCGAUAA
...............((((((...................))))))..((((..............))))...((((.(((((((.........)))))))))))............... (-17.23 = -17.48 +   0.25)

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 13:05:30 2006