Locus 5674

Sequence ID 2L_DroMel_CAF1
Location 16,118,575 – 16,118,693
Length 118
Max. P 0.816338
window8992 window8993

overview

Window 2

Location 16,118,575 – 16,118,693
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 92.79
Mean single sequence MFE -36.76
Consensus MFE -27.92
Energy contribution -28.80
Covariance contribution 0.88
Combinations/Pair 1.06
Mean z-score -2.09
Structure conservation index 0.76
SVM decision value 0.67
SVM RNA-class probability 0.816338
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16118575 118 + 22407834
AAGAUGAUGGCGCUGGAAAAUUGAAGGCGGGCCUGGGCCGAAAGGGGGCGGGGCUGGGCACCAGGAUCAGUGGUGGAUUGCCAAAUGACUAGCAAGAAGUGAUGUUAUGUGGGGCGUG
.........(((((....((((.....(.(((((.(.((......)).).))))).).(((((.......))))))))).(((.(((((..((.....))...))))).)))))))). ( -36.30)
>DroSec_CAF1 47715 118 + 1
AAGAUGAUGGCGCUGGAAAAUUGAAGGCGGGCCUGGGCCGAAAGGGGGCGGGGCUGGGCACUGGGAUCAGUGGUGGAUUGCCAAAUGACUAGCAAGAAGUGAUGUUAUGUGGGGCGUG
.........(((((....((((.(...(.(((((.(.((......)).).))))).).(((((....))))).).)))).(((.(((((..((.....))...))))).)))))))). ( -36.70)
>DroSim_CAF1 48857 118 + 1
AAGAUGAUGGCGCUGGAAAAUUGAAGGCGGGCCUGGGCCGAAAGGGGGCGGGGCUGGGCACUGGGAUCAGUGGUGGAUUGCCAAAUGACUAACAAGAAAUGAUGUUAUGUGGGGCGUG
.........(((((...........(((((((((.(.((......)).).))))).(.(((((....))))).)....))))...(.(((((((........))))).)).)))))). ( -35.40)
>DroEre_CAF1 49180 117 + 1
AAGAUGAUGGCGCUGGAAAAUUGAAGGCGGAACUGAGCCGGAAU-GGGCGGGCCAGGGCACUGGGAUCAGUGGUGGAUUGCCAAAUGACUAGCAAAAAGUGAUGUUAUGUGGGGCGUG
.........(((((.............((..((((((((.....-.)))...((((....))))..)))))..)).....(((.(((((..((.....))...))))).)))))))). ( -32.30)
>DroYak_CAF1 51933 116 + 1
AAGAUGAUGGCGCUAGAAAAUUGGAGGCGGGCCUCGGCCGA-AA-GGGCGGGGCAGGGCCUUGGGAUCAGUGGUGGAUUGCCAAAUGACUAGCAAAAAGUGAUGUUAUGUGGGGCGUG
.........(((((......((.(((((..((((((.((..-..-)).))))))...))))).))...............(((.(((((..((.....))...))))).)))))))). ( -43.10)
>consensus
AAGAUGAUGGCGCUGGAAAAUUGAAGGCGGGCCUGGGCCGAAAGGGGGCGGGGCUGGGCACUGGGAUCAGUGGUGGAUUGCCAAAUGACUAGCAAGAAGUGAUGUUAUGUGGGGCGUG
.........(((((...........(((((((((.(.((......)).).))))..(.(((((....))))).)...)))))...(.(((((((........))))).)).)))))). (-27.92 = -28.80 +   0.88)

alignment

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secondary structure

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dotplot

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Window 3

Location 16,118,575 – 16,118,693
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 92.79
Mean single sequence MFE -22.06
Consensus MFE -17.82
Energy contribution -17.26
Covariance contribution -0.56
Combinations/Pair 1.24
Mean z-score -1.58
Structure conservation index 0.81
SVM decision value 0.47
SVM RNA-class probability 0.749001
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16118575 118 - 22407834
CACGCCCCACAUAACAUCACUUCUUGCUAGUCAUUUGGCAAUCCACCACUGAUCCUGGUGCCCAGCCCCGCCCCCUUUCGGCCCAGGCCCGCCUUCAAUUUUCCAGCGCCAUCAUCUU
.......................(((((((....))))))).........(((..((((((........(((.......)))..(((....)))...........))))))..))).. ( -22.00)
>DroSec_CAF1 47715 118 - 1
CACGCCCCACAUAACAUCACUUCUUGCUAGUCAUUUGGCAAUCCACCACUGAUCCCAGUGCCCAGCCCCGCCCCCUUUCGGCCCAGGCCCGCCUUCAAUUUUCCAGCGCCAUCAUCUU
..(((..................(((((((....))))))).....(((((....)))))....(((..(((.......)))...))).................))).......... ( -20.70)
>DroSim_CAF1 48857 118 - 1
CACGCCCCACAUAACAUCAUUUCUUGUUAGUCAUUUGGCAAUCCACCACUGAUCCCAGUGCCCAGCCCCGCCCCCUUUCGGCCCAGGCCCGCCUUCAAUUUUCCAGCGCCAUCAUCUU
..(((......(((((........))))).......(((.......(((((....)))))....(((..(((.......)))...)))..)))............))).......... ( -23.20)
>DroEre_CAF1 49180 117 - 1
CACGCCCCACAUAACAUCACUUUUUGCUAGUCAUUUGGCAAUCCACCACUGAUCCCAGUGCCCUGGCCCGCCC-AUUCCGGCUCAGUUCCGCCUUCAAUUUUCCAGCGCCAUCAUCUU
..(((..................(((((((....)))))))......(((((..((((....))))...(((.-.....))))))))..................))).......... ( -20.60)
>DroYak_CAF1 51933 116 - 1
CACGCCCCACAUAACAUCACUUUUUGCUAGUCAUUUGGCAAUCCACCACUGAUCCCAAGGCCCUGCCCCGCCC-UU-UCGGCCGAGGCCCGCCUCCAAUUUUCUAGCGCCAUCAUCUU
.........................(((((....((((...........((....))((((...((((.(((.-..-..))).).)))..))))))))....)))))........... ( -23.80)
>consensus
CACGCCCCACAUAACAUCACUUCUUGCUAGUCAUUUGGCAAUCCACCACUGAUCCCAGUGCCCAGCCCCGCCCCCUUUCGGCCCAGGCCCGCCUUCAAUUUUCCAGCGCCAUCAUCUU
..(((..................(((((((....))))))).....(((((....)))))....(((..(((.......)))...))).................))).......... (-17.82 = -17.26 +  -0.56)

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 11:49:55 2006