Locus 3475

Sequence ID 3L_DroMel_CAF1
Location 10,217,409 – 10,217,529
Length 120
Max. P 0.944767
window5426 window5427

overview

Window 6

Location 10,217,409 – 10,217,529
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.33
Mean single sequence MFE -44.38
Consensus MFE -26.53
Energy contribution -25.40
Covariance contribution -1.13
Combinations/Pair 1.45
Mean z-score -2.55
Structure conservation index 0.60
SVM decision value 1.35
SVM RNA-class probability 0.944767
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10217409 120 + 23771897
AAAGUCGGCGGUCUUAUUGAAGCUGGUUUCUGACUCCUCAUGAUUAGCAACUUCAACAUGGUGCAAUAGGAUUUGCUGCACUGAAACCACUUUUGGUUGUAAGCGGCAUCGCCCACUUUC
(((((.(((((((((((((..(((((((..(((....))).))))))).(((.......))).))))))))).((((((.....(((((....)))))....)))))).)))).))))). ( -39.60)
>DroPse_CAF1 107784 120 + 1
AAUGUGGGCGGCCUGAUCGAGGCCGGCCUCUGGCUGCGCAUGAUCAGCAUCUUGAGCAUUUGGCAGUAGGUUUUGCUGCACUGAAACCACUUCUGAUUGUAGGCAGCGUCGCCCACUCGC
...(((((((((......((((....))))..(((((..(..(((((........((.....))(((.((((((........))))))))).)))))..)..)))))))))))))).... ( -48.80)
>DroGri_CAF1 107047 120 + 1
AAUGUGGGCGGUCUUAUCAUCGCUGGCUUUUGGCUGCGCAAAAUGAGCAUCUUAAGCAUGAUGCAAUAAGUUUUGCUGCACUGAAACCAGUUCUGAUUGUAGGCCGCAUCACCCACACGC
..((((((((((((.((((..(((((.(((..(.((((((((((..(((((........))))).....))))))).))))..))))))))..))))...))))))).....)))))... ( -49.50)
>DroWil_CAF1 156014 120 + 1
AAUGUGGGUGGCUUUAUGGCAGCGGGUCUCUGGCUACGCAUAAUCAAUAACUUCAACAUUUUGCAAUAGGUUUUGCUGCAUUGAAACCAUUUUUGAUUAUACGCUGAAUCGCCCACUCGC
...(((((((..((...(((.((((((.....))).)))((((((((....(((((......((((......))))....))))).......))))))))..)))))..))))))).... ( -33.30)
>DroMoj_CAF1 138211 120 + 1
AAAGUGGGUGGCCUUAUCAUCGCUGGCUUCUGGCUGCGCAUAAUCAUCAGCUUGAGCAUGAUGCAAUACCUCUUGCUGCACUGGAACCAGUUCUGGUUGUAGGCGGCAUCGCCCACGCGU
...((((((((......(((((...((((..(((((...........))))).)))).)))))..........((((((.(((.(((((....))))).))))))))))))))))).... ( -46.50)
>DroPer_CAF1 108190 120 + 1
AAUGUGGGCGGCCUGAUCGAGGCCGGCCUCUGGCUGCGCAUGAUCAGCAUCUUGAGCAUUUGGCAGUAGGUUUUGCUGCACUGAAACCACCUCUGAUUGUAGGCAGCGUCGCCCACUCGC
...(((((((((......((((....))))..(((((..(..(((((.........((....(((((((...)))))))..)).........)))))..)..)))))))))))))).... ( -48.57)
>consensus
AAUGUGGGCGGCCUUAUCGAAGCUGGCCUCUGGCUGCGCAUAAUCAGCAUCUUGAGCAUGUUGCAAUAGGUUUUGCUGCACUGAAACCACUUCUGAUUGUAGGCAGCAUCGCCCACUCGC
...(((((((((.(..((...(((((((...))))).))((((((((.........((....((((......)))).....)).........)))))))).))..).))))))))).... (-26.53 = -25.40 +  -1.13)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,217,409 – 10,217,529
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.33
Mean single sequence MFE -40.13
Consensus MFE -22.22
Energy contribution -23.12
Covariance contribution 0.89
Combinations/Pair 1.36
Mean z-score -2.00
Structure conservation index 0.55
SVM decision value 0.41
SVM RNA-class probability 0.725618
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10217409 120 - 23771897
GAAAGUGGGCGAUGCCGCUUACAACCAAAAGUGGUUUCAGUGCAGCAAAUCCUAUUGCACCAUGUUGAAGUUGCUAAUCAUGAGGAGUCAGAAACCAGCUUCAAUAAGACCGCCGACUUU
.(((((.(((((.(((((((........))))))).)).((((((.........))))))..(((((((((((....((.(((....)))))...))))))))))).....))).))))) ( -39.10)
>DroPse_CAF1 107784 120 - 1
GCGAGUGGGCGACGCUGCCUACAAUCAGAAGUGGUUUCAGUGCAGCAAAACCUACUGCCAAAUGCUCAAGAUGCUGAUCAUGCGCAGCCAGAGGCCGGCCUCGAUCAGGCCGCCCACAUU
....((((((...(((((((..(((((....)))))..)).)))))....(((.(((.....(((.((.(((....))).)).)))..))))))..(((((.....)))))))))))... ( -45.00)
>DroGri_CAF1 107047 120 - 1
GCGUGUGGGUGAUGCGGCCUACAAUCAGAACUGGUUUCAGUGCAGCAAAACUUAUUGCAUCAUGCUUAAGAUGCUCAUUUUGCGCAGCCAAAAGCCAGCGAUGAUAAGACCGCCCACAUU
..(((((((((....(.....).((((...(((((((..(.((.((((((......(((((........)))))...))))))...)))..)))))))...)))).....))))))))). ( -38.70)
>DroWil_CAF1 156014 120 - 1
GCGAGUGGGCGAUUCAGCGUAUAAUCAAAAAUGGUUUCAAUGCAGCAAAACCUAUUGCAAAAUGUUGAAGUUAUUGAUUAUGCGUAGCCAGAGACCCGCUGCCAUAAAGCCACCCACAUU
....(((((.(.....(((((((((((...((..((((((((..((((......))))....))))))))..)))))))))))))............(((.......)))).)))))... ( -33.60)
>DroMoj_CAF1 138211 120 - 1
ACGCGUGGGCGAUGCCGCCUACAACCAGAACUGGUUCCAGUGCAGCAAGAGGUAUUGCAUCAUGCUCAAGCUGAUGAUUAUGCGCAGCCAGAAGCCAGCGAUGAUAAGGCCACCCACUUU
.((((((((((....)))))))........((((((...(((((((((......))))((((.((....)))))).....)))))))))))......))).......((....))..... ( -39.10)
>DroPer_CAF1 108190 120 - 1
GCGAGUGGGCGACGCUGCCUACAAUCAGAGGUGGUUUCAGUGCAGCAAAACCUACUGCCAAAUGCUCAAGAUGCUGAUCAUGCGCAGCCAGAGGCCGGCCUCGAUCAGGCCGCCCACAUU
....(((((((.....((((...(((.(((((((((((.(.((((.........)))))...(((.((.(((....))).)).)))....)))))).)))))))).)))))))))))... ( -45.30)
>consensus
GCGAGUGGGCGAUGCCGCCUACAAUCAGAAGUGGUUUCAGUGCAGCAAAACCUAUUGCAAAAUGCUCAAGAUGCUGAUCAUGCGCAGCCAGAAGCCAGCCUCGAUAAGGCCGCCCACAUU
....(((((((....................(((((((.(((((((((......)))).....((.......))......))))).....)))))))(((.......))))))))))... (-22.22 = -23.12 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:02 2006