Locus 1098

Sequence ID 2L_DroMel_CAF1
Location 3,003,979 – 3,004,081
Length 102
Max. P 0.787605
window1784 window1785

overview

Window 4

Location 3,003,979 – 3,004,081
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.60
Mean single sequence MFE -23.49
Consensus MFE -14.65
Energy contribution -14.70
Covariance contribution 0.05
Combinations/Pair 1.11
Mean z-score -1.85
Structure conservation index 0.62
SVM decision value 0.04
SVM RNA-class probability 0.553780
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3003979 102 + 22407834
CUUUCUGGCUAGCUUUCUGCUUUCUACUGCCGGCCUGCCGGUCUUCAGCCGCGGCUCUUUCCAACUCCAAGCUCCAAA------------CUGCAGCUCCAACUUCU------ACUCCAA
......(((((((.....))).......(((((....)))))....))))((((......))........((......------------..)).))..........------....... ( -20.50)
>DroSec_CAF1 11566 94 + 1
CUUUCUGGCUAGCUUUCUGCUUUCUACUGC--------CGGUCUUCAGCCGAGGCUCUUACCAGCUCCAAGCUUCAAA------------CUGCAGCUCCAACUUCU------ACUCCAA
.....(((..(((.....)))..)))((((--------.(((.....)))((((((.............))))))...------------..))))...........------....... ( -17.12)
>DroSim_CAF1 10912 102 + 1
CUUUCUGGCUAGCUUUCUGCUUUCUACUGCCGGCCUGCCGGUCUUCAGCCGCGGCUCUUUCCAACUCCAAGCUUCAAA------------CUGCAGCUCCAACUUCU------ACUCCAA
......(((((((.....))).......(((((....)))))....))))((((......))........((......------------..)).))..........------....... ( -20.50)
>DroEre_CAF1 11577 114 + 1
CUUUCUGGCUAGCUUUCUGCUUUCUACUGCCGGCCUGCCGGUCUUCAGCUGCGGCUCUUUCCAACUUUAUGCUCCGAACACCAGCUUCAGCUGCAGCUCCAACUUCA------ACUCCAG
....((((..(((.....))).......(((((....)))))....((((((((((..............(((.........)))...)))))))))).........------...)))) ( -28.03)
>DroYak_CAF1 11197 120 + 1
CUUUCUGGCUAGCUUUCUGCUUUCUACUGCCGGCCUGCCGGUCUUCAGCUGCGGCUCUUUCCAACUCCGAGCUGCAAACACCAACUUCAGCUGCAGCUCCAACUUCAGCUCAAACUCCAA
......(((((((.....))).......(((((....)))))....))))(((((((...........))))))).............(((((.((......)).))))).......... ( -31.30)
>consensus
CUUUCUGGCUAGCUUUCUGCUUUCUACUGCCGGCCUGCCGGUCUUCAGCCGCGGCUCUUUCCAACUCCAAGCUCCAAA____________CUGCAGCUCCAACUUCU______ACUCCAA
......(((((((.....))).......(((((....)))))....))))..((......))........(((.((...............)).)))....................... (-14.65 = -14.70 +   0.05)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 3,003,979 – 3,004,081
Length 102
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.60
Mean single sequence MFE -33.04
Consensus MFE -21.53
Energy contribution -22.38
Covariance contribution 0.85
Combinations/Pair 1.13
Mean z-score -2.13
Structure conservation index 0.65
SVM decision value 0.58
SVM RNA-class probability 0.787605
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3003979 102 - 22407834
UUGGAGU------AGAAGUUGGAGCUGCAG------------UUUGGAGCUUGGAGUUGGAAAGAGCCGCGGCUGAAGACCGGCAGGCCGGCAGUAGAAAGCAGAAAGCUAGCCAGAAAG
((((...------....(((((..((((.(------------(((..(((((((..((....))..))).))))..))))..)))).))))).......(((.....)))..)))).... ( -30.10)
>DroSec_CAF1 11566 94 - 1
UUGGAGU------AGAAGUUGGAGCUGCAG------------UUUGAAGCUUGGAGCUGGUAAGAGCCUCGGCUGAAGACCG--------GCAGUAGAAAGCAGAAAGCUAGCCAGAAAG
.......------.....((((.(((((.(------------(((..((((.((.(((......))))).))))..))))..--------)))))....(((.....)))..)))).... ( -25.80)
>DroSim_CAF1 10912 102 - 1
UUGGAGU------AGAAGUUGGAGCUGCAG------------UUUGAAGCUUGGAGUUGGAAAGAGCCGCGGCUGAAGACCGGCAGGCCGGCAGUAGAAAGCAGAAAGCUAGCCAGAAAG
((((...------....(((((..((((.(------------(((..(((((((..((....))..))).))))..))))..)))).))))).......(((.....)))..)))).... ( -30.50)
>DroEre_CAF1 11577 114 - 1
CUGGAGU------UGAAGUUGGAGCUGCAGCUGAAGCUGGUGUUCGGAGCAUAAAGUUGGAAAGAGCCGCAGCUGAAGACCGGCAGGCCGGCAGUAGAAAGCAGAAAGCUAGCCAGAAAG
(((((((------(...(((...(((((.(((...((((((.((((((((.....)))((......))....))))).)))))).)))..)))))....)))....))))..)))).... ( -36.80)
>DroYak_CAF1 11197 120 - 1
UUGGAGUUUGAGCUGAAGUUGGAGCUGCAGCUGAAGUUGGUGUUUGCAGCUCGGAGUUGGAAAGAGCCGCAGCUGAAGACCGGCAGGCCGGCAGUAGAAAGCAGAAAGCUAGCCAGAAAG
(((((((((...(((...((...(((((.(((...((((((.(...((((((((..((....))..))).))))).).)))))).)))..))))).))...))).)))))..)))).... ( -42.00)
>consensus
UUGGAGU______AGAAGUUGGAGCUGCAG____________UUUGAAGCUUGGAGUUGGAAAGAGCCGCGGCUGAAGACCGGCAGGCCGGCAGUAGAAAGCAGAAAGCUAGCCAGAAAG
.................(((((..((((...................(((((((..((....))..))).))))...(.((((....)))))........))))....)))))....... (-21.53 = -22.38 +   0.85)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:35 2006