Locus 3337

Sequence ID 2L_DroMel_CAF1
Location 9,666,579 – 9,666,677
Length 98
Max. P 0.804965
window5292 window5293

overview

Window 2

Location 9,666,579 – 9,666,677
Length 98
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 83.02
Mean single sequence MFE -28.72
Consensus MFE -16.50
Energy contribution -17.03
Covariance contribution 0.53
Combinations/Pair 1.32
Mean z-score -2.41
Structure conservation index 0.57
SVM decision value -0.02
SVM RNA-class probability 0.524046
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9666579 98 + 22407834
UAUGGACAGCGAAUAGUUUGAAUGUUUGGCAUUUGCCAAAAAUCGUUUUU--UUUUCCGCUUUUCCGUUGUCUGUGGAGGGGAAUUCAAGGACAAUUAUG
...(((.((((((.((..(((...((((((....))))))..)))..)).--..)).))))..)))(((((((.((((......)))).))))))).... ( -26.30)
>DroSec_CAF1 24861 97 + 1
UAUGGACAGCGAAUAGUUUGAAUGUUUGGCAUUUGCCAAAAAUCGUUUUU---UUUCCGCUUGUCCGUUGUCUGUGGAGGGGAAUUCAAGGACAAUUAUG
...((((((((((.((..(((...((((((....))))))..)))..)).---.)).))).)))))(((((((.((((......)))).))))))).... ( -30.50)
>DroSim_CAF1 25864 99 + 1
AAUGGACAGCGAAUAGUUUGAAUGUUUGGCAUUUGCCAAAAAUCGUUUUUU-UUUUUCGCUUGUCCGUUGUCUGUGGAGGGGAAUUCAAGGACAAUUAUG
...((((((((((......(((((((((((....))))))...)))))...-...))))).)))))(((((((.((((......)))).))))))).... ( -34.40)
>DroEre_CAF1 30499 95 + 1
UACUGCGAACGAAUAGUUUGAACGUUUGGCAUUUGCCAAAAUUCGU-----UUUUCCUGUUUGUCCCUUGUCUGUGGAAGGGAAUUCAAGGACAAUUAUG
......((((((((.((....)).((((((....))))))))))))-----)).((((.....((((((........)))))).....))))........ ( -26.50)
>DroYak_CAF1 25010 100 + 1
UAUGGCGAGUGAAUAGUUUGAAUGUUUGGCAUUUGCCAAAAUUCGUUCUUUUUUUCCCGUUUGUCCAUUGUCUGUGGAGGGGAAUUCAAGGACAAUUAUG
............((((((.((((.((((((....))))))))))((((((..((((((.....(((((.....)))))))))))...)))))))))))). ( -28.30)
>DroAna_CAF1 27680 93 + 1
AGGGGAGGGAGAAUAGUUUGAAUGUUUGCCAUUUGCCAAAUUCCC-------AACCCUGUUUGUCCGCUGUCUCUGGGGGGAAGUUCAAGGACAAUUAUA
((((..(((((....((..(((((.....)))))))....)))))-------..))))..(((((((((.((((....)))))))....))))))..... ( -26.30)
>consensus
UAUGGACAGCGAAUAGUUUGAAUGUUUGGCAUUUGCCAAAAAUCGUUUUU__UUUCCCGCUUGUCCGUUGUCUGUGGAGGGGAAUUCAAGGACAAUUAUG
...((..((((........(((((((((((....))))))...))))).........))))...))(((((((.((((......)))).))))))).... (-16.50 = -17.03 +   0.53)

alignment

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secondary structure

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dotplot

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Window 3

Location 9,666,579 – 9,666,677
Length 98
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 83.02
Mean single sequence MFE -22.70
Consensus MFE -12.60
Energy contribution -12.66
Covariance contribution 0.06
Combinations/Pair 1.12
Mean z-score -3.36
Structure conservation index 0.56
SVM decision value 0.63
SVM RNA-class probability 0.804965
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9666579 98 - 22407834
CAUAAUUGUCCUUGAAUUCCCCUCCACAGACAACGGAAAAGCGGAAAA--AAAAACGAUUUUUGGCAAAUGCCAAACAUUCAAACUAUUCGCUGUCCAUA
.....(((((..((..........))..))))).(((..((((((...--......(((.((((((....)))))).))).......)))))).)))... ( -20.69)
>DroSec_CAF1 24861 97 - 1
CAUAAUUGUCCUUGAAUUCCCCUCCACAGACAACGGACAAGCGGAAA---AAAAACGAUUUUUGGCAAAUGCCAAACAUUCAAACUAUUCGCUGUCCAUA
.....(((((..((..........))..))))).(((((.(((((..---......(((.((((((....)))))).))).......))))))))))... ( -24.96)
>DroSim_CAF1 25864 99 - 1
CAUAAUUGUCCUUGAAUUCCCCUCCACAGACAACGGACAAGCGAAAAA-AAAAAACGAUUUUUGGCAAAUGCCAAACAUUCAAACUAUUCGCUGUCCAUU
.....(((((..((..........))..))))).(((((.(((((...-.......(((.((((((....)))))).))).......))))))))))... ( -24.33)
>DroEre_CAF1 30499 95 - 1
CAUAAUUGUCCUUGAAUUCCCUUCCACAGACAAGGGACAAACAGGAAAA-----ACGAAUUUUGGCAAAUGCCAAACGUUCAAACUAUUCGUUCGCAGUA
....(((((...(((((((((((........))))))............-----..((((((((((....)))))).)))).....)))))...))))). ( -22.40)
>DroYak_CAF1 25010 100 - 1
CAUAAUUGUCCUUGAAUUCCCCUCCACAGACAAUGGACAAACGGGAAAAAAAGAACGAAUUUUGGCAAAUGCCAAACAUUCAAACUAUUCACUCGCCAUA
.......((.(((...(((((.((((.......)))).....)))))...))).))((((((((((....)))))).))))................... ( -21.00)
>DroAna_CAF1 27680 93 - 1
UAUAAUUGUCCUUGAACUUCCCCCCAGAGACAGCGGACAAACAGGGUU-------GGGAAUUUGGCAAAUGGCAAACAUUCAAACUAUUCUCCCUCCCCU
.....(((((((((..(((.......))).))).))))))..((((..-------((((...(((..((((.....))))....)))...))))..)))) ( -22.80)
>consensus
CAUAAUUGUCCUUGAAUUCCCCUCCACAGACAACGGACAAACGGAAAA__AAAAACGAAUUUUGGCAAAUGCCAAACAUUCAAACUAUUCGCUCUCCAUA
.....(((((((((................))).))))))................((..((((((....))))))...))................... (-12.60 = -12.66 +   0.06)

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 10:50:05 2006