Locus 5045

Sequence ID 2L_DroMel_CAF1
Location 14,477,752 – 14,477,893
Length 141
Max. P 0.993282
window8019 window8020 window8021

overview

Window 9

Location 14,477,752 – 14,477,872
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.78
Mean single sequence MFE -33.00
Consensus MFE -30.47
Energy contribution -31.13
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.92
SVM decision value 0.34
SVM RNA-class probability 0.695226
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14477752 120 + 22407834
GCAACGUUGAUGGGGCCCACGGCCCCUAUCAACUCGGUAGUCUCGAUGCGCGGAAGUAAUUGAGUUAAAUAUGCACAAGAUGACAGCAUAAAUUAUGCGCCUCACAAAAAAAGAGUUAAA
(((..((((((((((((...)))))).))))))....(((.((((((..((....)).)))))))))....)))......(((..(((((...)))))...)))................ ( -36.60)
>DroSec_CAF1 2355 120 + 1
GCAACGCUGAUGGGGCCCACGGCCCCUAUCAACUCGGUAGUCCCGAUGCGCGGAAGUAAUUGAGUUAAAUAUGCACAAGAUGACAGCAUAAAUUAUGCGCCUCACAAAAAAAGAGUUAAA
........(((((((((...)))))).)))(((((((.....))((.(((((.((....))........(((((...........))))).....))))).)).........)))))... ( -32.30)
>DroEre_CAF1 736 118 + 1
GCAACGUUGAUGG-GCCCACGGCCCCUAUCAACUCGGUAGUCCCGAUGCGCGGAAGUAAUUGAGUUAAAUAUGCACAAGAUGACAGCAUAAAUUAUGCGCCUCACAAA-AAAGAGUUAAA
(((..((((((((-(((...)))))..))))))((((.....)))))))((....((..(((.((.......)).)))....)).(((((...)))))))(((.....-...)))..... ( -30.10)
>consensus
GCAACGUUGAUGGGGCCCACGGCCCCUAUCAACUCGGUAGUCCCGAUGCGCGGAAGUAAUUGAGUUAAAUAUGCACAAGAUGACAGCAUAAAUUAUGCGCCUCACAAAAAAAGAGUUAAA
..(((((((((((((((...)))))).))))))..(((.(((.((((..((....)).)))).((.......)).......))).(((((...)))))))).............)))... (-30.47 = -31.13 +   0.67)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,477,792 – 14,477,893
Length 101
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 87.68
Mean single sequence MFE -27.03
Consensus MFE -25.43
Energy contribution -25.43
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.33
Structure conservation index 0.94
SVM decision value 2.39
SVM RNA-class probability 0.993282
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14477792 101 + 22407834
UCUCGAUGCGCGGAAGUAAUUGAGUUAAAUAUGCACAAGAUGACAGCAUAAAUUAUGCGCCUCACAAAAAAAGAGUUAAAUGUGGUCUUGUGGCAAACAAA-------------------
.((((((..((....)).)))))).......((((((((((.((((((((...)))))..(((.........))).....))).))))))).)))......------------------- ( -29.30)
>DroSec_CAF1 2395 101 + 1
UCCCGAUGCGCGGAAGUAAUUGAGUUAAAUAUGCACAAGAUGACAGCAUAAAUUAUGCGCCUCACAAAAAAAGAGUUAAAUGUGGUCUUGUGGCAAACAAA-------------------
...((((..((....)).)))).........((((((((((.((((((((...)))))..(((.........))).....))).))))))).)))......------------------- ( -25.50)
>DroEre_CAF1 775 119 + 1
UCCCGAUGCGCGGAAGUAAUUGAGUUAAAUAUGCACAAGAUGACAGCAUAAAUUAUGCGCCUCACAAA-AAAGAGUUAAAUGUGGUCUUGUGGCAAACAAAAAAACAAAAAAAAACAGAA
...((((..((....)).)))).........((((((((((.((((((((...)))))..(((.....-...))).....))).))))))).)))......................... ( -26.30)
>consensus
UCCCGAUGCGCGGAAGUAAUUGAGUUAAAUAUGCACAAGAUGACAGCAUAAAUUAUGCGCCUCACAAAAAAAGAGUUAAAUGUGGUCUUGUGGCAAACAAA___________________
...((((..((....)).)))).........((((((((((.((((((((...)))))..(((.........))).....))).))))))).)))......................... (-25.43 = -25.43 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,477,792 – 14,477,893
Length 101
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 87.68
Mean single sequence MFE -20.18
Consensus MFE -18.81
Energy contribution -19.14
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.21
Structure conservation index 0.93
SVM decision value 0.13
SVM RNA-class probability 0.596861
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14477792 101 - 22407834
-------------------UUUGUUUGCCACAAGACCACAUUUAACUCUUUUUUUGUGAGGCGCAUAAUUUAUGCUGUCAUCUUGUGCAUAUUUAACUCAAUUACUUCCGCGCAUCGAGA
-------------------......(((.((((((.((((..............)))).((((((((...))))).))).))))))))).......(((.................))). ( -18.27)
>DroSec_CAF1 2395 101 - 1
-------------------UUUGUUUGCCACAAGACCACAUUUAACUCUUUUUUUGUGAGGCGCAUAAUUUAUGCUGUCAUCUUGUGCAUAUUUAACUCAAUUACUUCCGCGCAUCGGGA
-------------------......(((.((((((.((((..............)))).((((((((...))))).))).)))))))))................(((((.....))))) ( -20.74)
>DroEre_CAF1 775 119 - 1
UUCUGUUUUUUUUUGUUUUUUUGUUUGCCACAAGACCACAUUUAACUCUUU-UUUGUGAGGCGCAUAAUUUAUGCUGUCAUCUUGUGCAUAUUUAACUCAAUUACUUCCGCGCAUCGGGA
............(((..((...((.(((.((((((.((((...........-..)))).((((((((...))))).))).))))))))).))..))..)))....(((((.....))))) ( -21.52)
>consensus
___________________UUUGUUUGCCACAAGACCACAUUUAACUCUUUUUUUGUGAGGCGCAUAAUUUAUGCUGUCAUCUUGUGCAUAUUUAACUCAAUUACUUCCGCGCAUCGGGA
.........................(((.((((((.((((..............)))).((((((((...))))).))).)))))))))................(((((.....))))) (-18.81 = -19.14 +   0.33)

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 11:34:27 2006