Locus 3064

Sequence ID 2R_DroMel_CAF1
Location 10,527,310 – 10,527,467
Length 157
Max. P 0.989640
window5046 window5047 window5048

overview

Window 6

Location 10,527,310 – 10,527,430
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -22.40
Consensus MFE -20.73
Energy contribution -20.73
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.93
SVM decision value 0.44
SVM RNA-class probability 0.735673
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10527310 120 + 20766785
GUUAUUUUCCUCAACAAUUUCUGCAGCCUCAACUUUUAUUUUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUU
.........................(((.(((..............((..((....)).)).(((..(((((.(((((...))))).)))))..))).))).)))............... ( -22.40)
>DroSec_CAF1 28149 120 + 1
GUUAUUUUCCUCAACAAUUUCUGCAGCCUCAACUUUUAUUUUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUU
.........................(((.(((..............((..((....)).)).(((..(((((.(((((...))))).)))))..))).))).)))............... ( -22.40)
>DroSim_CAF1 24333 120 + 1
GUUAUUUUCCUCAACAAUUUCUGCAGCCUCAACUUUUAUUUUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUU
.........................(((.(((..............((..((....)).)).(((..(((((.(((((...))))).)))))..))).))).)))............... ( -22.40)
>DroEre_CAF1 30391 120 + 1
GUUAUUUUCCUCAACAAUUUCUGCAGCCUCAACUUUUAUUUUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUU
.........................(((.(((..............((..((....)).)).(((..(((((.(((((...))))).)))))..))).))).)))............... ( -22.40)
>DroYak_CAF1 28488 120 + 1
GUUAUUUUCCUCAACAAUUUCUGCAGCCUCAACUUUUAUUUUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUU
.........................(((.(((..............((..((....)).)).(((..(((((.(((((...))))).)))))..))).))).)))............... ( -22.40)
>consensus
GUUAUUUUCCUCAACAAUUUCUGCAGCCUCAACUUUUAUUUUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUU
........((.(((........((((((...........................)))))).(((..(((((.(((((...))))).)))))..))).))).))................ (-20.73 = -20.73 +   0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,527,310 – 10,527,430
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 100.00
Mean single sequence MFE -25.49
Consensus MFE -25.49
Energy contribution -25.49
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 1.00
SVM decision value 2.17
SVM RNA-class probability 0.989640
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10527310 120 - 20766785
AAUUAAAUUAUGUGUGCCACAAAGUUCGCCUGAAUUAUGUCGCAUAAAUCAAAUAAACAGCAGCCGAAGCAGGCGGAAAAAAUAAAAGUUGAGGCUGCAGAAAUUGUUGAGGAAAAUAAC
............(((((.(((.(((((....))))).))).)))))..((((.......((((((..(((.................)))..))))))........)))).......... ( -25.49)
>DroSec_CAF1 28149 120 - 1
AAUUAAAUUAUGUGUGCCACAAAGUUCGCCUGAAUUAUGUCGCAUAAAUCAAAUAAACAGCAGCCGAAGCAGGCGGAAAAAAUAAAAGUUGAGGCUGCAGAAAUUGUUGAGGAAAAUAAC
............(((((.(((.(((((....))))).))).)))))..((((.......((((((..(((.................)))..))))))........)))).......... ( -25.49)
>DroSim_CAF1 24333 120 - 1
AAUUAAAUUAUGUGUGCCACAAAGUUCGCCUGAAUUAUGUCGCAUAAAUCAAAUAAACAGCAGCCGAAGCAGGCGGAAAAAAUAAAAGUUGAGGCUGCAGAAAUUGUUGAGGAAAAUAAC
............(((((.(((.(((((....))))).))).)))))..((((.......((((((..(((.................)))..))))))........)))).......... ( -25.49)
>DroEre_CAF1 30391 120 - 1
AAUUAAAUUAUGUGUGCCACAAAGUUCGCCUGAAUUAUGUCGCAUAAAUCAAAUAAACAGCAGCCGAAGCAGGCGGAAAAAAUAAAAGUUGAGGCUGCAGAAAUUGUUGAGGAAAAUAAC
............(((((.(((.(((((....))))).))).)))))..((((.......((((((..(((.................)))..))))))........)))).......... ( -25.49)
>DroYak_CAF1 28488 120 - 1
AAUUAAAUUAUGUGUGCCACAAAGUUCGCCUGAAUUAUGUCGCAUAAAUCAAAUAAACAGCAGCCGAAGCAGGCGGAAAAAAUAAAAGUUGAGGCUGCAGAAAUUGUUGAGGAAAAUAAC
............(((((.(((.(((((....))))).))).)))))..((((.......((((((..(((.................)))..))))))........)))).......... ( -25.49)
>consensus
AAUUAAAUUAUGUGUGCCACAAAGUUCGCCUGAAUUAUGUCGCAUAAAUCAAAUAAACAGCAGCCGAAGCAGGCGGAAAAAAUAAAAGUUGAGGCUGCAGAAAUUGUUGAGGAAAAUAAC
............(((((.(((.(((((....))))).))).)))))..((((.......((((((..(((.................)))..))))))........)))).......... (-25.49 = -25.49 +   0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,527,350 – 10,527,467
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.29
Mean single sequence MFE -36.56
Consensus MFE -29.14
Energy contribution -29.34
Covariance contribution 0.20
Combinations/Pair 1.05
Mean z-score -2.58
Structure conservation index 0.80
SVM decision value 1.13
SVM RNA-class probability 0.920275
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10527350 117 + 20766785
UUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUUUUUGCCAUCACUUCGUG---GUGGUAAGGGAGUUGCAGAA
..(((.((..(((((.((..(.(((..(((((.(((((...))))).)))))..)))...)..))...............(((((((((((...)))---))))))))))))).)).))) ( -36.50)
>DroSec_CAF1 28189 117 + 1
UUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUUUUUGCCAUCACUUCGUG---GUGGUAAGGGAGUUGCAGAA
..(((.((..(((((.((..(.(((..(((((.(((((...))))).)))))..)))...)..))...............(((((((((((...)))---))))))))))))).)).))) ( -36.50)
>DroSim_CAF1 24373 117 + 1
UUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUUUUUGCCAUCACUUCGUG---GUGGUAAGGGAGUUGCAGAA
..(((.((..(((((.((..(.(((..(((((.(((((...))))).)))))..)))...)..))...............(((((((((((...)))---))))))))))))).)).))) ( -36.50)
>DroEre_CAF1 30431 117 + 1
UUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUUUUUGCCAUCACUUCGUG---GCGGGAAGGAAGUUGCAGAG
...((.((..(((((.((..(.(((..(((((.(((((...))))).)))))..)))...)..)).............((((((((((......)))---))))))).))))).)).)). ( -34.60)
>DroYak_CAF1 28528 120 + 1
UUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUUUUUGCCAUCACUUCGUGGUGGUGGGAAGGAAGUUGCAGAA
..(((.((..(((((.((..(.(((..(((((.(((((...))))).)))))..)))...)..)).............((((..(((((((...)))))))..)))).))))).)).))) ( -38.70)
>consensus
UUUUCCGCCUGCUUCGGCUGCUGUUUAUUUGAUUUAUGCGACAUAAUUCAGGCGAACUUUGUGGCACACAUAAUUUAAUUUUUGCCAUCACUUCGUG___GUGGUAAGGGAGUUGCAGAA
..(((.((..(((((.((..(.(((..(((((.(((((...))))).)))))..)))...)..))...............(((((((((((...)))...))))))))))))).)).))) (-29.14 = -29.34 +   0.20)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:27 2006