Locus 3010

Sequence ID 3L_DroMel_CAF1
Location 8,654,989 – 8,655,080
Length 91
Max. P 0.643790
window4696 window4697

overview

Window 6

Location 8,654,989 – 8,655,080
Length 91
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 81.54
Mean single sequence MFE -17.43
Consensus MFE -10.40
Energy contribution -11.68
Covariance contribution 1.28
Combinations/Pair 1.10
Mean z-score -2.04
Structure conservation index 0.60
SVM decision value 0.23
SVM RNA-class probability 0.643790
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8654989 91 + 23771897
CCUUAAGUGCUCCCUAUAAUUCAUGCACGCUACCUAAUUUCCAGAUCAGCACUCUGUGCAAAUCGCGAUUUGCAUAGCUGCAUUCCUUAGA
......((((..............))))....................(((..((((((((((....)))))))))).))).......... ( -19.74)
>DroSec_CAF1 42987 91 + 1
CCUUAAGUGCUCCCUAUAAUUCAUGCACGCUACCUAAUUUCCAGAUCACCACUCUGUGCAAAUCGCGAUUUGCAUAGCUGCAUUCCUUAGA
.............(((......(((((.((((.........((((.......))))(((((((....))))))))))))))))....))). ( -18.40)
>DroSim_CAF1 43337 91 + 1
CCUUAAGUGCUCCCUAUAAUUCAUGCACGCUACCUAAUUUCCAAAUCAGCCAUCUGUGCAAAUCGCGAUUUGCAUAGCUGCAUUCCUUAGA
......((((..............))))....................((...((((((((((....))))))))))..)).......... ( -18.34)
>DroEre_CAF1 44370 91 + 1
CCUUAGGUACACCCUAUAAUUCAUGCAUGCCACCUAAUUUCCAGAUCAGCAUUCUGUGCAAAUUGCGAUUUGCAUAGCUGCAUUCCAUGGA
..((((((.((..(..........)..))..))))))..((((.....(((..((((((((((....)))))))))).)))......)))) ( -20.70)
>DroYak_CAF1 44294 91 + 1
CCUUAAGUGCUCCCUAUAAUUCAUGCAUGCUACCUAAUUUCCAGAUCAGCACUCUGUGCAAAUUGCAAUUUGCAUAGCCGCAUUCCUUCGA
.....(((((.................((((..((.......))...))))..((((((((((....))))))))))..)))))....... ( -15.90)
>DroAna_CAF1 40928 78 + 1
CUUAAAUUAUUUCCCAU--UUUAU------UUCUAGAUUUCCAGAUC-----CCUGUGAAAAUUGCAAUUUUCAUGAUUGCAUUCCUCGAG
.................--.....------.((.((.(((((((...-----.))).))))..(((((((.....)))))))...)).)). ( -11.50)
>consensus
CCUUAAGUGCUCCCUAUAAUUCAUGCACGCUACCUAAUUUCCAGAUCAGCACUCUGUGCAAAUCGCGAUUUGCAUAGCUGCAUUCCUUAGA
......................(((((.((((.........((((.......))))(((((((....))))))))))))))))........ (-10.40 = -11.68 +   1.28)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,654,989 – 8,655,080
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 81.54
Mean single sequence MFE -21.63
Consensus MFE -16.20
Energy contribution -16.65
Covariance contribution 0.45
Combinations/Pair 1.29
Mean z-score -1.41
Structure conservation index 0.75
SVM decision value 0.21
SVM RNA-class probability 0.636227
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8654989 91 - 23771897
UCUAAGGAAUGCAGCUAUGCAAAUCGCGAUUUGCACAGAGUGCUGAUCUGGAAAUUAGGUAGCGUGCAUGAAUUAUAGGGAGCACUUAAGG
..(((...((((((((((((((((....)))))).((((.......))))........))))).)))))...)))((((.....))))... ( -23.10)
>DroSec_CAF1 42987 91 - 1
UCUAAGGAAUGCAGCUAUGCAAAUCGCGAUUUGCACAGAGUGGUGAUCUGGAAAUUAGGUAGCGUGCAUGAAUUAUAGGGAGCACUUAAGG
..(((...((((((((((((((((....)))))).((((.......))))........))))).)))))...)))((((.....))))... ( -23.10)
>DroSim_CAF1 43337 91 - 1
UCUAAGGAAUGCAGCUAUGCAAAUCGCGAUUUGCACAGAUGGCUGAUUUGGAAAUUAGGUAGCGUGCAUGAAUUAUAGGGAGCACUUAAGG
..(((...((((((((((((((((....))))))........((((((....))))))))))).)))))...)))((((.....))))... ( -22.10)
>DroEre_CAF1 44370 91 - 1
UCCAUGGAAUGCAGCUAUGCAAAUCGCAAUUUGCACAGAAUGCUGAUCUGGAAAUUAGGUGGCAUGCAUGAAUUAUAGGGUGUACCUAAGG
((((.((...(((.((.(((((((....))))))).))..)))...))))))..(((((((.(((.(..........).)))))))))).. ( -24.00)
>DroYak_CAF1 44294 91 - 1
UCGAAGGAAUGCGGCUAUGCAAAUUGCAAUUUGCACAGAGUGCUGAUCUGGAAAUUAGGUAGCAUGCAUGAAUUAUAGGGAGCACUUAAGG
((....))((((((((((((((((....)))))).((((.......))))........))))).)))))......((((.....))))... ( -22.00)
>DroAna_CAF1 40928 78 - 1
CUCGAGGAAUGCAAUCAUGAAAAUUGCAAUUUUCACAGG-----GAUCUGGAAAUCUAGAA------AUAAA--AUGGGAAAUAAUUUAAG
((((((((.((((((.......)))))).))))).....-----..(((((....))))).------.....--..)))............ ( -15.50)
>consensus
UCUAAGGAAUGCAGCUAUGCAAAUCGCAAUUUGCACAGAGUGCUGAUCUGGAAAUUAGGUAGCGUGCAUGAAUUAUAGGGAGCACUUAAGG
........((((((((((((((((....)))))).((((.......))))........))))).)))))......((((.....))))... (-16.20 = -16.65 +   0.45)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:20 2006