Locus 10163

Sequence ID 3R_DroMel_CAF1
Location 27,293,842 – 27,293,935
Length 93
Max. P 0.966023
window16169 window16170

overview

Window 9

Location 27,293,842 – 27,293,935
Length 93
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 79.33
Mean single sequence MFE -31.93
Consensus MFE -17.17
Energy contribution -16.83
Covariance contribution -0.33
Combinations/Pair 1.14
Mean z-score -2.52
Structure conservation index 0.54
SVM decision value 1.08
SVM RNA-class probability 0.911570
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27293842 93 + 27905053
--UGAUGUCCAGUUAGCCGGUUUUCUUUGGCUUCAGCUUGGCUCAGCUUGUUGGCCUGUCAGGCGGCAGCGCAAAACUGACAGCCAACAUUGACA
--(((.(((.((((((((((......))))))..)))).))))))...(((((((.(((((((((....)))....)))))))))))))...... ( -35.30)
>DroVir_CAF1 79923 78 + 1
AGCGUUGGCCAGUUAGCCAAGUUG----------------G-UACGCUUGUAGGCCUGUCAGCCGGCCUGACAAAAUUGACAGCCAACAUUGACA
...((((((..(((((((.....)----------------)-)....(((((((((.(....).))))).))))...)))).))))))....... ( -26.10)
>DroPse_CAF1 100090 81 + 1
AGUGAUGUCCAGUUAGCCGGGUUUUUU--------------CCCGGCUUGUAGGCCUGUCAGGCGGCAACACAAAACUGACAGCCAACAUUGACA
.....((((.....(((((((......--------------)))))))(((.(((.(((((((.(....).)....))))))))).)))..)))) ( -31.90)
>DroSim_CAF1 68129 93 + 1
--CGAUGUCCAGUUAGCCGGUUUUCUUUGGCUUCAGCUUGGCUCAGCUUGUCGGCCUGUCAGGCGGCAGCGCAAAACUGACAGCCAACAUUGACA
--.((.(((.((((((((((......))))))..)))).)))))....(((.(((.(((((((((....)))....))))))))).)))...... ( -30.80)
>DroEre_CAF1 69432 88 + 1
--UGAUGUCCAGUUAGCCGGGUUUCUUUGGCUUCG-----GCUCGGCUUGUUGGCCUGUCAGGCGGCAGCGCAAAACUGACAGCCAACAUUGACA
--...((((.(((((((((((((.....))).)))-----))).))))(((((((.(((((((((....)))....)))))))))))))..)))) ( -35.60)
>DroPer_CAF1 96392 81 + 1
AGUGAUGUCCAGUUAGCCGGGUUUUUU--------------CCCGGCUUGUAGGCCUGUCAGGCGGCAACACAAAACUGACAGCCAACAUUGACA
.....((((.....(((((((......--------------)))))))(((.(((.(((((((.(....).)....))))))))).)))..)))) ( -31.90)
>consensus
__UGAUGUCCAGUUAGCCGGGUUUCUU_____________GCUCGGCUUGUAGGCCUGUCAGGCGGCAGCACAAAACUGACAGCCAACAUUGACA
...........((((((.((......................)).)).(((.(((.((((((...(.....)....))))))))).))).)))). (-17.17 = -16.83 +  -0.33)

alignment

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secondary structure

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dotplot

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Window 0

Location 27,293,842 – 27,293,935
Length 93
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 79.33
Mean single sequence MFE -31.46
Consensus MFE -21.74
Energy contribution -22.33
Covariance contribution 0.58
Combinations/Pair 1.08
Mean z-score -2.66
Structure conservation index 0.69
SVM decision value 1.59
SVM RNA-class probability 0.966023
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27293842 93 - 27905053
UGUCAAUGUUGGCUGUCAGUUUUGCGCUGCCGCCUGACAGGCCAACAAGCUGAGCCAAGCUGAAGCCAAAGAAAACCGGCUAACUGGACAUCA--
((((..(((((((((((((....(((....))))))))).)))))))((((......))))..((((..........)))).....))))...-- ( -33.00)
>DroVir_CAF1 79923 78 - 1
UGUCAAUGUUGGCUGUCAAUUUUGUCAGGCCGGCUGACAGGCCUACAAGCGUA-C----------------CAACUUGGCUAACUGGCCAACGCU
(((((..((((((((.((....)).)).)))))))))))........(((((.-.----------------.....(((((....)))))))))) ( -24.91)
>DroPse_CAF1 100090 81 - 1
UGUCAAUGUUGGCUGUCAGUUUUGUGUUGCCGCCUGACAGGCCUACAAGCCGGG--------------AAAAAACCCGGCUAACUGGACAUCACU
((((..(((.(((((((((....(((....))))))))).))).)))(((((((--------------......))))))).....))))..... ( -33.30)
>DroSim_CAF1 68129 93 - 1
UGUCAAUGUUGGCUGUCAGUUUUGCGCUGCCGCCUGACAGGCCGACAAGCUGAGCCAAGCUGAAGCCAAAGAAAACCGGCUAACUGGACAUCG--
((((..(((((((((((((....(((....))))))))).)))))))((((......))))..((((..........)))).....))))...-- ( -32.70)
>DroEre_CAF1 69432 88 - 1
UGUCAAUGUUGGCUGUCAGUUUUGCGCUGCCGCCUGACAGGCCAACAAGCCGAGC-----CGAAGCCAAAGAAACCCGGCUAACUGGACAUCA--
((((..(((((((((((((....(((....))))))))).)))))))((...(((-----((..............)))))..)).))))...-- ( -31.54)
>DroPer_CAF1 96392 81 - 1
UGUCAAUGUUGGCUGUCAGUUUUGUGUUGCCGCCUGACAGGCCUACAAGCCGGG--------------AAAAAACCCGGCUAACUGGACAUCACU
((((..(((.(((((((((....(((....))))))))).))).)))(((((((--------------......))))))).....))))..... ( -33.30)
>consensus
UGUCAAUGUUGGCUGUCAGUUUUGCGCUGCCGCCUGACAGGCCUACAAGCCGAGC_____________AAGAAACCCGGCUAACUGGACAUCA__
((((..(((.(((((((((....(((....))))))))).))).)))(((((........................))))).....))))..... (-21.74 = -22.33 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:50:12 2006