Locus 6515

Sequence ID 3L_DroMel_CAF1
Location 17,269,473 – 17,269,582
Length 109
Max. P 0.857182
window10551 window10552

overview

Window 1

Location 17,269,473 – 17,269,582
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.17
Mean single sequence MFE -34.06
Consensus MFE -29.06
Energy contribution -28.74
Covariance contribution -0.32
Combinations/Pair 1.08
Mean z-score -1.71
Structure conservation index 0.85
SVM decision value 0.81
SVM RNA-class probability 0.857182
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17269473 109 + 23771897
UUUGUCAAUGGCAGAUGGUCGCUUUUCCUGCGGACAACAACUCCGAUCCGGGAAGCGAAACCGCCUAAUGACAAUUGCCGAGCUCACGGAGUUUUUCCACAAAGAAAAA-----------
.((((((..(((.(....((((((..(...((((.......))))....)..))))))..).)))...))))))...(((......)))..((((((......))))))----------- ( -30.90)
>DroSec_CAF1 152898 115 + 1
UUUGUCAAUGGCAGAUGGUCGCUUUUCCUGCGGACAACAACUCCGAUCCGGAAAGCGAAACCGCCUAAUGACAAUUGCCGAGCUAACGG-----CUCCACGAGCUCCACAAAGAAAAUUU
.((((((..(((.(....(((((((((...((((.......))))....)))))))))..).)))...))))))(((..(((((..((.-----.....)))))))..)))......... ( -35.50)
>DroSim_CAF1 147948 120 + 1
UUUGUCAAUGGCAGAUGGUCGCUUUUCCUGCGGACAACAACUCCGAUCCGGGAAGCGAAACCGCCUAAUGACAAUUGCCGAGCUCACGGAGUUUCUCUACACAGAAAAACAAGAAAAUUU
.((((((..(((.(....((((((..(...((((.......))))....)..))))))..).)))...))))))...(((......))).((((.(((....))).)))).......... ( -33.00)
>DroEre_CAF1 155835 120 + 1
UUUGUCAAUGGCAGAUGGUCGCUUUUCCUGCGGACAACAACUCCGAUCCGGGAAGCGAAACCGCCUAAUGACAAUUGUCGAGCUCACGGAGCUUCUCCACUGAGGAAAACGAACUUAUUU
.((((((..(((.(....((((((..(...((((.......))))....)..))))))..).)))...))))))...(((.((((...))))(((((....)))))...)))........ ( -35.70)
>DroYak_CAF1 160582 120 + 1
UUUGUCAAUGGCAGAUGGUCGCUUUUCCUGCGGACAACAACUCCGAUCCGGGAAGCGAAACCGCCUAAUGACAAUUGCCGAGCUCACGGAGUUUCUCUACUGAGAAAAACAAAGUAAUUU
.((((((..(((.(....((((((..(...((((.......))))....)..))))))..).)))...))))))...(((......)))..((((((....))))))............. ( -35.20)
>consensus
UUUGUCAAUGGCAGAUGGUCGCUUUUCCUGCGGACAACAACUCCGAUCCGGGAAGCGAAACCGCCUAAUGACAAUUGCCGAGCUCACGGAGUUUCUCCACAAAGAAAAACAAAAAAAUUU
.((((((..(((.(....(((((((((...((((.......))))....)))))))))..).)))...))))))...(((......)))............................... (-29.06 = -28.74 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,269,473 – 17,269,582
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.17
Mean single sequence MFE -37.64
Consensus MFE -30.26
Energy contribution -30.14
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -1.63
Structure conservation index 0.80
SVM decision value 0.39
SVM RNA-class probability 0.716565
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17269473 109 - 23771897
-----------UUUUUCUUUGUGGAAAAACUCCGUGAGCUCGGCAAUUGUCAUUAGGCGGUUUCGCUUCCCGGAUCGGAGUUGUUGUCCGCAGGAAAAGCGACCAUCUGCCAUUGACAAA
-----------(((((((....)))))))..(((......)))...((((((...(((((..((((((((((((.(((.....)))))))..)))..)))))....)))))..)))))). ( -33.30)
>DroSec_CAF1 152898 115 - 1
AAAUUUUCUUUGUGGAGCUCGUGGAG-----CCGUUAGCUCGGCAAUUGUCAUUAGGCGGUUUCGCUUUCCGGAUCGGAGUUGUUGUCCGCAGGAAAAGCGACCAUCUGCCAUUGACAAA
.........((((.(((((..((...-----.))..))))).))))((((((...(((((..(((((((((....((((.......))))..)).)))))))....)))))..)))))). ( -44.20)
>DroSim_CAF1 147948 120 - 1
AAAUUUUCUUGUUUUUCUGUGUAGAGAAACUCCGUGAGCUCGGCAAUUGUCAUUAGGCGGUUUCGCUUCCCGGAUCGGAGUUGUUGUCCGCAGGAAAAGCGACCAUCUGCCAUUGACAAA
..........((((((((....)))))))).(((......)))...((((((...(((((..((((((((((((.(((.....)))))))..)))..)))))....)))))..)))))). ( -36.20)
>DroEre_CAF1 155835 120 - 1
AAAUAAGUUCGUUUUCCUCAGUGGAGAAGCUCCGUGAGCUCGACAAUUGUCAUUAGGCGGUUUCGCUUCCCGGAUCGGAGUUGUUGUCCGCAGGAAAAGCGACCAUCUGCCAUUGACAAA
..........(((...((((.(((((...)))))))))...)))..((((((...(((((..((((((((((((.(((.....)))))))..)))..)))))....)))))..)))))). ( -38.20)
>DroYak_CAF1 160582 120 - 1
AAAUUACUUUGUUUUUCUCAGUAGAGAAACUCCGUGAGCUCGGCAAUUGUCAUUAGGCGGUUUCGCUUCCCGGAUCGGAGUUGUUGUCCGCAGGAAAAGCGACCAUCUGCCAUUGACAAA
...((((...((((((((....))))))))...)))).........((((((...(((((..((((((((((((.(((.....)))))))..)))..)))))....)))))..)))))). ( -36.30)
>consensus
AAAUUAUCUUGUUUUUCUCAGUGGAGAAACUCCGUGAGCUCGGCAAUUGUCAUUAGGCGGUUUCGCUUCCCGGAUCGGAGUUGUUGUCCGCAGGAAAAGCGACCAUCUGCCAUUGACAAA
....................((.(((......(....)))).))..((((((...(((((..((((((((((((.(((.....)))))))..)))..)))))....)))))..)))))). (-30.26 = -30.14 +  -0.12)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:19 2006