Locus 1026

Sequence ID 2R_DroMel_CAF1
Location 4,230,129 – 4,230,249
Length 120
Max. P 0.995374
window1822 window1823

overview

Window 2

Location 4,230,129 – 4,230,249
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.17
Mean single sequence MFE -32.30
Consensus MFE -29.06
Energy contribution -29.18
Covariance contribution 0.12
Combinations/Pair 1.09
Mean z-score -1.97
Structure conservation index 0.90
SVM decision value 2.57
SVM RNA-class probability 0.995374
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4230129 120 + 20766785
ACAGAUUGUUGCAGCUAAAAUCGGGUCAGAUGCGGCCGAAAAGGAAUUGAUGCUUUCCUCGCCAGCAUCACAAUAUGUUUUUGGCUUUAAUGCUUUUGUUUACUAAAUUAGCAGCAACUA
.......(((((.(((((.....(((((((.(((((((((((.(.(((((((((.........)))))))..)).).))))))))).....)).))))...)))...))))).))))).. ( -32.30)
>DroSec_CAF1 42041 120 + 1
ACAGAUUGUUGCAGCUAAGACCGGGUCAGAUGCGGCCGAAAAGGAAUUGAUGCUUUCCUUGCCAGCAUCACAAUAUGUUUUUGGUUUUAAUGCUUUUGUUUACUAAAUAAGCAGCAACUA
.......((((((((((((((((((...((((((((....((((((........))))))))).)))))((.....)).))))))))))..)))..((((((.....))))))))))).. ( -34.80)
>DroSim_CAF1 73231 120 + 1
ACAGAUUGUUGCAGCUAAGACCGGGUCAGAUGCGGCCGAAAAGGAAUUGAUGCUUUCCUUGCCAGCAUCACAAUAUGUUUUUGGCUUUAAUGCUUUUGUUUACUAAAUAAGCAGCAACUA
.......(((((((((((((.((.....((((((((....((((((........))))))))).)))))......)).))))))))....(((((...((....))..)))))))))).. ( -34.60)
>DroEre_CAF1 43330 120 + 1
ACAGAUUGUUGCAGCUAUGAUCGGGUCAGAUGCGGCCGAAAAGGAAUUGAUGCUUUCCUCGCCAGCAUCACAAUAUGUUUUUGGCUUUAAUGCUUUUCUUUACUAAAUUAGCAGCAACUA
.......(((((.((((......(((.(((.(((((((((((.(.(((((((((.........)))))))..)).).))))))))).....))...)))..)))....)))).))))).. ( -31.50)
>DroYak_CAF1 45419 120 + 1
ACAGAUUGUUGCAGCUAAGAUCAAGUCAGAUGCGGCCGAAAAAUAAUUGAUUCGUUCCUCGCCAGCAUCACAAUAUGUUUUUGGCUUUAAUGCUUUUGUUUACUAAAUUAGCAGCAACUA
.......(((((((((((((.((.((..((((((((.((..((..(.....)..))..))))).)))))...)).)).))))))))....((((...(((.....))).))))))))).. ( -28.30)
>consensus
ACAGAUUGUUGCAGCUAAGAUCGGGUCAGAUGCGGCCGAAAAGGAAUUGAUGCUUUCCUCGCCAGCAUCACAAUAUGUUUUUGGCUUUAAUGCUUUUGUUUACUAAAUUAGCAGCAACUA
.......(((((((((((((.((.....((((((((.....(((((........))))).))).)))))......)).))))))))....((((...............))))))))).. (-29.06 = -29.18 +   0.12)

alignment

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secondary structure

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dotplot

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Window 3

Location 4,230,129 – 4,230,249
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.17
Mean single sequence MFE -29.58
Consensus MFE -25.80
Energy contribution -26.44
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.78
Structure conservation index 0.87
SVM decision value 1.65
SVM RNA-class probability 0.969835
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4230129 120 - 20766785
UAGUUGCUGCUAAUUUAGUAAACAAAAGCAUUAAAGCCAAAAACAUAUUGUGAUGCUGGCGAGGAAAGCAUCAAUUCCUUUUCGGCCGCAUCUGACCCGAUUUUAGCUGCAACAAUCUGU
..(((((.(((((..............((......))..............(((((.(((((((((........))))))....))))))))..........))))).)))))....... ( -30.10)
>DroSec_CAF1 42041 120 - 1
UAGUUGCUGCUUAUUUAGUAAACAAAAGCAUUAAAACCAAAAACAUAUUGUGAUGCUGGCAAGGAAAGCAUCAAUUCCUUUUCGGCCGCAUCUGACCCGGUCUUAGCUGCAACAAUCUGU
..(((((((((.....))))......(((..(((.(((....((.....))(((((.(((((((((........))))))....))))))))......))).)))))))))))....... ( -29.00)
>DroSim_CAF1 73231 120 - 1
UAGUUGCUGCUUAUUUAGUAAACAAAAGCAUUAAAGCCAAAAACAUAUUGUGAUGCUGGCAAGGAAAGCAUCAAUUCCUUUUCGGCCGCAUCUGACCCGGUCUUAGCUGCAACAAUCUGU
..(((((((((.....))))......(((..(((..((....((.....))(((((.(((((((((........))))))....))))))))......))..)))))))))))....... ( -29.70)
>DroEre_CAF1 43330 120 - 1
UAGUUGCUGCUAAUUUAGUAAAGAAAAGCAUUAAAGCCAAAAACAUAUUGUGAUGCUGGCGAGGAAAGCAUCAAUUCCUUUUCGGCCGCAUCUGACCCGAUCAUAGCUGCAACAAUCUGU
..(((((.((((...............((......))..............(((((.(((((((((........))))))....))))))))...........)))).)))))....... ( -29.50)
>DroYak_CAF1 45419 120 - 1
UAGUUGCUGCUAAUUUAGUAAACAAAAGCAUUAAAGCCAAAAACAUAUUGUGAUGCUGGCGAGGAACGAAUCAAUUAUUUUUCGGCCGCAUCUGACUUGAUCUUAGCUGCAACAAUCUGU
..(((((.(((((...(((........((......))..............(((((.(.(((((((..(.....)..))))))).).)))))..))).....))))).)))))....... ( -29.60)
>consensus
UAGUUGCUGCUAAUUUAGUAAACAAAAGCAUUAAAGCCAAAAACAUAUUGUGAUGCUGGCGAGGAAAGCAUCAAUUCCUUUUCGGCCGCAUCUGACCCGAUCUUAGCUGCAACAAUCUGU
..(((((.(((((((((((..........))))))................(((((.(((..((((((.(.....).)))))).))))))))..........))))).)))))....... (-25.80 = -26.44 +   0.64)

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 09:54:37 2006