Locus 5487

Sequence ID X_DroMel_CAF1
Location 14,249,682 – 14,249,803
Length 121
Max. P 0.802504
window8899 window8900

overview

Window 9

Location 14,249,682 – 14,249,779
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.22
Mean single sequence MFE -35.02
Consensus MFE -24.58
Energy contribution -25.74
Covariance contribution 1.16
Combinations/Pair 1.11
Mean z-score -1.58
Structure conservation index 0.70
SVM decision value 0.08
SVM RNA-class probability 0.574556
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14249682 97 + 22224390
GUUGCGAG-----------------------CUGAGAACUGAGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUACAAUGUGUUUGGGCAUUAAGUCCAUAGUUGAUGCUUCAA
.(((.(((-----------------------(....(((((.(((((.(((((((((...(((((...)))))...)))..(((.....))))))))).))))).)))))...))))))) ( -33.60)
>DroSec_CAF1 157848 97 + 1
GUUGCGAG-----------------------CUGAGGGCUGCGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUACAAUGUGUUUGGGCAUUAAGUCCAUGGUUGAUGCUUCAA
........-----------------------.(((((.((((.(((.....))).)))).(((((((.((((....(((((.........)))))....)))).)))))))...))))). ( -34.70)
>DroSim_CAF1 139207 104 + 1
GUUGCGAGCUGGGAG----------------CUGAGGGCUGCGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUACAAUGUGAUUGGGCAUUAAGUCCAUAGUUGAUGCUUCAA
...........((((----------------(.((..(((((.(((.....))).)))).)..))((((((((.((((....(((((......)))))..)))).))))))))))))).. ( -36.30)
>DroEre_CAF1 144974 90 + 1
GCUGGGAGCUGGGAG------------------------------CUGAGUGCCGGCGGACAAUCAUCGAUUGAGGGCCUACAAUGUGUUUGGGCAUUAAGUCCAUAGUUGAUGCUUCAA
(((((..(((.(...------------------------------.).))).)))))(((....(((((((((.((((....(((((......)))))..)))).))))))))).))).. ( -26.90)
>DroYak_CAF1 150010 120 + 1
GUGGCGAGUUGGGAGCUCAGAGGACUGAGGACUGAGGACUGUGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUGCAAUGUGUUUGGGCAUUAAGUCCAUGGUUGAUGCUUCAA
(.((((..(..(...(((((....)))))..)..).(((((((((((.(((((((((...(((((...)))))...)))..(((.....))))))))).)))))))))))..)))).).. ( -43.60)
>consensus
GUUGCGAG_UGGGAG________________CUGAGGACUGCGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUACAAUGUGUUUGGGCAUUAAGUCCAUAGUUGAUGCUUCAA
....................................(((((.(((((.(((((((((...(((((...)))))...)))..(((.....))))))))).))))).))))).......... (-24.58 = -25.74 +   1.16)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,249,699 – 14,249,803
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.23
Mean single sequence MFE -35.88
Consensus MFE -25.92
Energy contribution -26.28
Covariance contribution 0.36
Combinations/Pair 1.09
Mean z-score -2.05
Structure conservation index 0.72
SVM decision value 0.62
SVM RNA-class probability 0.802504
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14249699 104 + 22224390
GAGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUACAAUGUGUUUGGGCAUUAAGUCCAUAGUUGAUGCUUCAAUCGCACAUUUU-UAUGGCUCCGCC-A--------------
...(((.....)))(((...(((((...))))).(((((...((((((((((((((((((.(....).))))))).))))..)))))))..-...))).)))))-.-------------- ( -35.90)
>DroSec_CAF1 157865 104 + 1
GCGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUACAAUGUGUUUGGGCAUUAAGUCCAUGGUUGAUGCUUCAAUCGCACAUUUU-UAUGGCUCCGCC-A--------------
...(((.....)))(((...(((((...))))).(((((...(((((((.(((((.....))))).((((((....)))))))))))))..-...))).)))))-.-------------- ( -38.70)
>DroSim_CAF1 139231 114 + 1
GCGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUACAAUGUGAUUGGGCAUUAAGUCCAUAGUUGAUGCUUCAAUCGCACAUUA-----AAUUCCACC-ACAUUGGAGCUUCAG
((.(((.....))).))..............(((((........((((((((((((((((.(....).))))))).))))))))).....-----..(((((..-....)))))))))). ( -34.90)
>DroEre_CAF1 144989 100 + 1
-----CUGAGUGCCGGCGGACAAUCAUCGAUUGAGGGCCUACAAUGUGUUUGGGCAUUAAGUCCAUAGUUGAUGCUUCAAUCGCACAUUUUAUAUGGCUCCAGC-A--------------
-----(((.(.((((((...(((((...)))))...)))...((((((((((((((((((.(....).))))))).))))..)))))))......))).)))).-.-------------- ( -29.60)
>DroYak_CAF1 150050 105 + 1
GUGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUGCAAUGUGUUUGGGCAUUAAGUCCAUGGUUGAUGCUUCAAUCGCACAUUUU-UACGGCUCCACCAA--------------
((((((((...((.(((...(((((...)))))...))).))(((((((.(((((.....))))).((((((....)))))))))))))..-..)))).))))...-------------- ( -40.30)
>consensus
GCGGGCUGAGUGCCGGCAGACAAUCAUCGAUUGAGGGCCUACAAUGUGUUUGGGCAUUAAGUCCAUAGUUGAUGCUUCAAUCGCACAUUUU_UAUGGCUCCACC_A______________
...((.((.(.((((((...(((((...)))))...)))...((((((((((((((((((.(....).))))))).))))..)))))))......))).)))))................ (-25.92 = -26.28 +   0.36)

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 11:49:06 2006