Locus 6823

Sequence ID 2L_DroMel_CAF1
Location 19,073,869 – 19,074,189
Length 320
Max. P 0.954299
window10885 window10886 window10887

overview

Window 5

Location 19,073,869 – 19,073,989
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.25
Mean single sequence MFE -25.54
Consensus MFE -18.30
Energy contribution -17.54
Covariance contribution -0.76
Combinations/Pair 1.29
Mean z-score -1.66
Structure conservation index 0.72
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19073869 120 + 22407834
AGUAGUUUCACUGCAACCACCUCACCACGGCUGUUUCCCAAAAUCCUGAUGAUUCCACUGCUCAUGCGCAAAUCUACCUUAUUCUCCUCCAGGAGCUUCAGUAUCCGCUGUCCUAUCAAC
.((((.....))))............(((((((.....)).....((((.((((....(((......))))))).........((((....))))..)))).....)))))......... ( -17.70)
>DroSec_CAF1 6782 120 + 1
AGGAGCUCCACUGCAGCCACCUCACAACGGCUGUUUCCCAAAAUCCUGAUGAUUCCACUGCUCAUGCGCAAAUCUACCUUAUUCUCCUCCAGGAGCUUCAGUAUCCGCUGUCCUAUCAAC
(((((((((...((((((..........))))))................((((....(((......))))))).................)))))..((((....))))))))...... ( -26.60)
>DroSim_CAF1 6790 120 + 1
AGGAGCUCCACUGCAGCCACCUCCCCACGGCUGUUUCCCAAAAUCCUGAUGAUUCCACUGCUCAUGCGCAAAUCUACCUUAUUCUCCUCCAGGAGCUUCAGUAUCCGCUGUCCUAUCAAC
(((((((((...((((((..........))))))................((((....(((......))))))).................)))))..((((....))))))))...... ( -26.60)
>DroEre_CAF1 6146 120 + 1
AGGAGUUCCACUGCAGUCACUUCCCCACGAUUGUUUCCCAGGAUCCGGAUGAUUCCACUGCUCAUGCGCACAUCUACCUCAUGCUCCUCCAGGAGUUUCAGUAUCCGCUGUCCCACCAAC
.((.........((((((..........))))))......((((.((((((.......(((......))).......((...(((((....)))))...))))))))..))))..))... ( -25.50)
>DroYak_CAF1 6390 120 + 1
AGCAGCUUCACUGCAGUCACCUCCCCACGAUUGUUUCCCAGGAUCCGCGUGAUUCCACUGCUCACGCGCACUUCUACCUUAUUCUCCUCCAGGAGUUCCUGUAUCCGCUGUCCUAUCGAC
.(((((......((((((..........))))))....(((((..(((((((.........)))))))...............((((....)))).))))).....)))))......... ( -31.30)
>consensus
AGGAGCUCCACUGCAGCCACCUCCCCACGGCUGUUUCCCAAAAUCCUGAUGAUUCCACUGCUCAUGCGCAAAUCUACCUUAUUCUCCUCCAGGAGCUUCAGUAUCCGCUGUCCUAUCAAC
.((((((((...((((((..........))))))........................(((......))).....................))))))))..................... (-18.30 = -17.54 +  -0.76)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,073,989 – 19,074,109
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.75
Mean single sequence MFE -46.82
Consensus MFE -38.42
Energy contribution -37.74
Covariance contribution -0.68
Combinations/Pair 1.19
Mean z-score -1.63
Structure conservation index 0.82
SVM decision value 0.73
SVM RNA-class probability 0.835624
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19073989 120 - 22407834
AGUGGUGUGCCUGGGUUCCAGUUUCAUGGCUGUGGAGGCUACGGCCAAUCUGGUUUCUAGAGCGCGCAGCGUUACGCUGGUAGCCCGGCAAAAUGUGCCUUUCAAAAGCACAUUGGGCGA
....(((((((((((..((((.....(((((((((...)))))))))..))))..))))).))))))..((((..(((((....)))))..(((((((.........))))))).)))). ( -52.00)
>DroSec_CAF1 6902 120 - 1
AGUGGUGUGCCUGGGUUCCAGUUUCAUGGCUGUGGAGGCUUCGGCCAAUCUCGUUUCCAGAGCGGGCAGCGUUACCCUGGUAGCUCGACAAAAUGUGCCUUUCAAAAGCACAUUGGGUGA
.((.((.((((((((((((((((....))))).)))(((....))).........))))).))).)).))(((((....)))))...((..(((((((.........)))))))..)).. ( -42.80)
>DroSim_CAF1 6910 120 - 1
AGUGGUGUGCCUGGGUUCCAGUUUCAUGGCUGUGGAGGCUUCGGCCAAUCUCGUUUCCAGAGCGGGCAGCGUUACCCUGGUAGCCCGUCAAAAUGUGCCCUUCAAAAGCACAUUGGGUGA
.((.((.((((((((((((((((....))))).)))(((....))).........))))).))).)).)).((((((.((....)).....(((((((.........))))))))))))) ( -42.90)
>DroEre_CAF1 6266 120 - 1
AGUGGUCUGCCUGGGUUCCAGUUUCAUGGCUGUGGAAGCUUCCGCCAAUCUCGUUUCCAGAGCGGGCAGCGUUACCCUGGUAGCCCGACAAAAUGUGCCAUUCCAAAGCACAUUGGGUGA
..(((.(((((.((((..(.(((...(.(((.(((((((.............))))))).))).)..))))..)))).))))).)))((..(((((((.........)))))))..)).. ( -43.72)
>DroYak_CAF1 6510 120 - 1
CGUGGUGUGCCUGGGCUCCAGUUUCAUGGCUGUGGAGGCUUCCGCCAAUCUCGUUGCCAGAGCGGGCCGCGUUACCCUGGUAGCGCGACAAAAUGUGCCUUUUAAAGGCACAUUGGGUGA
...(((.(((((((.(..(((((....)))))..).(((....)))..........)))).))).)))(((((((....))))))).((..(((((((((.....)))))))))..)).. ( -52.70)
>consensus
AGUGGUGUGCCUGGGUUCCAGUUUCAUGGCUGUGGAGGCUUCGGCCAAUCUCGUUUCCAGAGCGGGCAGCGUUACCCUGGUAGCCCGACAAAAUGUGCCUUUCAAAAGCACAUUGGGUGA
........((((((((((((........(((.(((((((.............))))))).)))(((........)))))).))))).....(((((((.........))))))))))).. (-38.42 = -37.74 +  -0.68)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,074,069 – 19,074,189
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.33
Mean single sequence MFE -31.24
Consensus MFE -27.90
Energy contribution -29.10
Covariance contribution 1.20
Combinations/Pair 1.05
Mean z-score -1.58
Structure conservation index 0.89
SVM decision value 1.44
SVM RNA-class probability 0.954299
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19074069 120 + 22407834
AGCCUCCACAGCCAUGAAACUGGAACCCAGGCACACCACUUGGGUUGAUUUGUCCACCAUUUUGAAUAUGCUCCUGGCAUCGCCAAUAUUCCGAAUGACUUUCACAUUUUUCAAGUGCAC
.((((......(((......))).....))))....((((((((..(((.((.....(((((.((((((.....((((...)))))))))).))))).....)).))).))))))))... ( -27.90)
>DroSec_CAF1 6982 120 + 1
AGCCUCCACAGCCAUGAAACUGGAACCCAGGCACACCACUUUGGUUGAUUUGUCCACCAUUUGGAAUAUGCUCCUGGCAUCGCCAACGUCCCGAAUGGUUUUCACAUUUUUCAAGUGCAU
.((((......(((......))).....))))....(((((.((..(((.((...(((((((((...(((....((((...)))).))).)))))))))...)).)))..)))))))... ( -30.20)
>DroSim_CAF1 6990 120 + 1
AGCCUCCACAGCCAUGAAACUGGAACCCAGGCACACCACUUGGGUUGAUUUGUCCACCAUUUGGAAUAUGCUCCUGGCAUCGCCAAUGUCCCGAAUGGUUUUCACAUUUUUCAAGUGCAC
.((((......(((......))).....))))....((((((((..(((.((...(((((((((.((((.....((((...)))))))).)))))))))...)).))).))))))))... ( -34.60)
>DroEre_CAF1 6346 120 + 1
AGCUUCCACAGCCAUGAAACUGGAACCCAGGCAGACCACUUGCGUUGAUUUGCCCACCAUUUGGAAUAUGCUCCUGGCGUCGCCAAUAUCCCGAAUGGUUUUCACAUUUUUCAAGUGCAC
..........(((.(((((.(((((....(((((((.((....)).).)))))).(((((((((.((((.....((((...)))))))).))))))))).))).))..))))).).)).. ( -29.80)
>DroYak_CAF1 6590 120 + 1
AGCCUCCACAGCCAUGAAACUGGAGCCCAGGCACACCACGUGCGUUGAUUUGUCCACCAUUUGGAAUAUGCUCCUGGCAUCGCCAAUAUCCCGAAUGGUUUUCACAUUCUUCAAGUGCAC
.((((......(((......))).....)))).......(((((((((..(((..(((((((((.((((.....((((...)))))))).)))))))))....)))....)))).))))) ( -33.70)
>consensus
AGCCUCCACAGCCAUGAAACUGGAACCCAGGCACACCACUUGGGUUGAUUUGUCCACCAUUUGGAAUAUGCUCCUGGCAUCGCCAAUAUCCCGAAUGGUUUUCACAUUUUUCAAGUGCAC
.((((......(((......))).....))))....((((((((..(((.((...(((((((((.((((.....((((...)))))))).)))))))))...)).))).))))))))... (-27.90 = -29.10 +   1.20)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:44 2006