Locus 4257

Sequence ID 2L_DroMel_CAF1
Location 12,166,470 – 12,166,571
Length 101
Max. P 0.994177
window6720 window6721

overview

Window 0

Location 12,166,470 – 12,166,571
Length 101
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 74.83
Mean single sequence MFE -28.95
Consensus MFE -12.91
Energy contribution -13.13
Covariance contribution 0.23
Combinations/Pair 1.41
Mean z-score -1.86
Structure conservation index 0.45
SVM decision value 0.06
SVM RNA-class probability 0.564727
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12166470 101 + 22407834
AGGAGUAUUCGCCAGGCAUGGAGAACUGCGGGCAAUGUUUGAGCCCUUCGGAUAAAAGUGGAAAACGGAAAUCCUCGGAUCCGGAAAAGGGCGAAGGAAAA
.......((((((..(((.(.....))))((((.........))))(((((((....(.(((.........))).)..)))))))....))))))...... ( -29.40)
>DroSec_CAF1 51501 101 + 1
AGGAGUAUUCGCCGGGCAUGGAGAACUGCGGGCAAUGUUUGAGCCCUUCGGAGAAAAAUGGAAAACGGAAAUCCGUGGACCCGGAAAAGGGCGAAGGAAGA
....((.((..(((((((((((...(((.((((.........))))((((........))))...)))...))))))..)))))..))..))......... ( -27.90)
>DroSim_CAF1 49116 101 + 1
AGGAGUAUUCGCCGGGCAUGGAGAACUGCGGGCAAUGUUUGAGCCCUUCGGAGAAAAAUGGAAAACGGAAAUCCGUGGACCCUGAAAAGGGUGAAGGAAGA
.......(((.(((((((.(.....))))((((.........)))).)))).))).........((((....))))..(((((....)))))......... ( -29.70)
>DroEre_CAF1 47619 101 + 1
AGGAGUAUUCGCCGGAUAUGGAGAACUGCGGACAAUGCUUAAGUCCUUUGGACAAAAAUGCCAAACGCAAGUUCUCGGACCCGGAAAAGGGCGAUGGCAGG
..........((((......(((((((((((((.........))))(((((.((....))))))).)).))))))).(.(((......))))..))))... ( -31.90)
>DroYak_CAF1 42579 98 + 1
AGGAGUAUUCGCCGGGUAUGGAGGACUGCGGACAAUGCUUAAGUCCUUCGGAAAAAAAUGCAAAAAAGAAAGCUUUGGACCCGGAAAAGGGCGAAGG---G
....((.((..((((((.((((((((((((.....)))...)))))))))..............((((....))))..))))))..))..)).....---. ( -27.00)
>DroMoj_CAF1 56354 88 + 1
AAGAGUAUACGCCCGGCAUGGAGGACUGCAAUCAGUGCAUGACUCCCCAGACCAAGA------------CAGCCGUCAACGAGGCCAAGGGCGCGGA-UGA
.........(((((((..(((.(((.((((.....))))....))))))..))....------------..(((........)))...)))))....-... ( -27.80)
>consensus
AGGAGUAUUCGCCGGGCAUGGAGAACUGCGGGCAAUGCUUGAGCCCUUCGGACAAAAAUGGAAAACGGAAAUCCGUGGACCCGGAAAAGGGCGAAGGAAGA
.......((((((..(((.(.....))))((((.........)))).........................(((........)))....))))))...... (-12.91 = -13.13 +   0.23)

alignment

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secondary structure

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dotplot

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Window 1

Location 12,166,470 – 12,166,571
Length 101
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 74.83
Mean single sequence MFE -27.58
Consensus MFE -12.83
Energy contribution -13.03
Covariance contribution 0.20
Combinations/Pair 1.39
Mean z-score -2.85
Structure conservation index 0.47
SVM decision value 2.46
SVM RNA-class probability 0.994177
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12166470 101 - 22407834
UUUUCCUUCGCCCUUUUCCGGAUCCGAGGAUUUCCGUUUUCCACUUUUAUCCGAAGGGCUCAAACAUUGCCCGCAGUUCUCCAUGCCUGGCGAAUACUCCU
.........((((((...(((((..(((...............)))..))))))))))).......(((((.(((........)))..)))))........ ( -25.16)
>DroSec_CAF1 51501 101 - 1
UCUUCCUUCGCCCUUUUCCGGGUCCACGGAUUUCCGUUUUCCAUUUUUCUCCGAAGGGCUCAAACAUUGCCCGCAGUUCUCCAUGCCCGGCGAAUACUCCU
......((((((.......(((...((((....))))..))).............((((......((((....)))).......))))))))))....... ( -26.82)
>DroSim_CAF1 49116 101 - 1
UCUUCCUUCACCCUUUUCAGGGUCCACGGAUUUCCGUUUUCCAUUUUUCUCCGAAGGGCUCAAACAUUGCCCGCAGUUCUCCAUGCCCGGCGAAUACUCCU
...(((((((((((....)))))..((((....))))...............))))))........(((((.(((........)))..)))))........ ( -25.90)
>DroEre_CAF1 47619 101 - 1
CCUGCCAUCGCCCUUUUCCGGGUCCGAGAACUUGCGUUUGGCAUUUUUGUCCAAAGGACUUAAGCAUUGUCCGCAGUUCUCCAUAUCCGGCGAAUACUCCU
..((((...((((......))))..(((((((.((.(((((((....)).)))))((((.........))))))))))))).......))))......... ( -33.50)
>DroYak_CAF1 42579 98 - 1
C---CCUUCGCCCUUUUCCGGGUCCAAAGCUUUCUUUUUUGCAUUUUUUUCCGAAGGACUUAAGCAUUGUCCGCAGUCCUCCAUACCCGGCGAAUACUCCU
.---..((((((......((((...(((((..........)).)))...)))).((((((...((.......))))))))........))))))....... ( -21.30)
>DroMoj_CAF1 56354 88 - 1
UCA-UCCGCGCCCUUGGCCUCGUUGACGGCUG------------UCUUGGUCUGGGGAGUCAUGCACUGAUUGCAGUCCUCCAUGCCGGGCGUAUACUCUU
...-...((((((..((((........)))).------------....(((.(((((.(.(.((((.....))))).)))))).)))))))))........ ( -32.80)
>consensus
UCUUCCUUCGCCCUUUUCCGGGUCCAAGGAUUUCCGUUUUCCAUUUUUCUCCGAAGGACUCAAACAUUGCCCGCAGUUCUCCAUGCCCGGCGAAUACUCCU
.......(((((.......((((((..(((...................)))...))))))....((((....))))...........)))))........ (-12.83 = -13.03 +   0.20)

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 11:13:37 2006