Locus 6761

Sequence ID 2L_DroMel_CAF1
Location 18,901,294 – 18,901,388
Length 94
Max. P 0.908960
window10796 window10797

overview

Window 6

Location 18,901,294 – 18,901,388
Length 94
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 84.69
Mean single sequence MFE -24.70
Consensus MFE -19.83
Energy contribution -19.67
Covariance contribution -0.16
Combinations/Pair 1.21
Mean z-score -2.86
Structure conservation index 0.80
SVM decision value 1.06
SVM RNA-class probability 0.908960
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18901294 94 + 22407834
U--U---UUACUUACUUUUUGCUGCAAUUU-------UGUCGCAUUUUUCAUGCACUUUACGAGCUAGCCUAUAACUUGCUGAAUUUAUGACAAAUUGCAGCAGGC
.--.---..........(((((((((((((-------.(((((((.....))))........(((.((.......)).)))........)))))))))))))))). ( -25.70)
>DroSec_CAF1 26515 94 + 1
U--U---UUACUCACUCUUUGCUGCAAUUU-------UGUCGCAUUUUUCAUGCACUUUACGAGCUGGCCUAUAACUUGCUGAAUUUAUGACAAAUUGCAGCAGGC
.--.---..........(((((((((((((-------.(((((((.....))))........(((.((.......)).)))........)))))))))))))))). ( -25.60)
>DroSim_CAF1 25672 94 + 1
U--U---UUACUCACUCUUUGCUGCAAUUU-------UGUCGCAUUUUUCAUGCACUUUACGAUCUGGCCUAUAACUUGCUGAAUUUAUGACAAAUUGCAGCAGGC
.--.---..........(((((((((((((-------.(((((((.....)))).......(((..(((.........)))..)))...)))))))))))))))). ( -24.70)
>DroEre_CAF1 24678 101 + 1
U--U---UUACUUACUUUUUGCUGCAAUUUGCUGCAAUGUCGCAUUUUUCAUGCACUUUACGAGCUGGCCUAUAAAUUGCUGAAUUUAUGACAAAUUGCAGCAGGC
.--.---..........((((((((((((((.(((......)))...((((.(((.((((..((.....)).)))).))))))).......)))))))))))))). ( -25.50)
>DroYak_CAF1 25263 99 + 1
UGUUUGCUUACUUACUUUUUGCUGCAAUUU-------UGUCGCAUUUUUCAUGCACUUUACGAGCUGGCCUAUAAAUUGCUGAAUUUAUGACAAAUUGCAGGAGGC
.................(((.(((((((((-------.((((.....((((.(((.((((..((.....)).)))).)))))))....))))))))))))).))). ( -21.20)
>DroAna_CAF1 13394 83 + 1
U----------------UCUGCUGCACUUC-------UGUCGCAUUUCUUAGGCAGUUUACGAGCCGGUCCAUAACGAACCGAAUUUAUGACAAAUGGCAGCAGGC
.----------------((((((((.(...-------(((((...(((...(((.(....)..)))(((.(.....).))))))....)))))...))))))))). ( -25.50)
>consensus
U__U___UUACUUACUUUUUGCUGCAAUUU_______UGUCGCAUUUUUCAUGCACUUUACGAGCUGGCCUAUAACUUGCUGAAUUUAUGACAAAUUGCAGCAGGC
.................((((((((((((........((((((((.....))))...........((((.........)))).......)))))))))))))))). (-19.83 = -19.67 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,901,294 – 18,901,388
Length 94
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 84.69
Mean single sequence MFE -27.93
Consensus MFE -19.22
Energy contribution -19.97
Covariance contribution 0.75
Combinations/Pair 1.11
Mean z-score -3.91
Structure conservation index 0.69
SVM decision value 0.98
SVM RNA-class probability 0.893303
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18901294 94 - 22407834
GCCUGCUGCAAUUUGUCAUAAAUUCAGCAAGUUAUAGGCUAGCUCGUAAAGUGCAUGAAAAAUGCGACA-------AAAUUGCAGCAAAAAGUAAGUAA---A--A
...((((((((((((((.((..(((((((..(((..((....))..)))..))).))))...)).))).-------)))))))))))............---.--. ( -28.60)
>DroSec_CAF1 26515 94 - 1
GCCUGCUGCAAUUUGUCAUAAAUUCAGCAAGUUAUAGGCCAGCUCGUAAAGUGCAUGAAAAAUGCGACA-------AAAUUGCAGCAAAGAGUGAGUAA---A--A
...((((((((((((((.((..(((((((..(((..((....))..)))..))).))))...)).))).-------)))))))))))............---.--. ( -28.60)
>DroSim_CAF1 25672 94 - 1
GCCUGCUGCAAUUUGUCAUAAAUUCAGCAAGUUAUAGGCCAGAUCGUAAAGUGCAUGAAAAAUGCGACA-------AAAUUGCAGCAAAGAGUGAGUAA---A--A
...((((((((((((((.((..(((((((..(((..(......)..)))..))).))))...)).))).-------)))))))))))............---.--. ( -25.20)
>DroEre_CAF1 24678 101 - 1
GCCUGCUGCAAUUUGUCAUAAAUUCAGCAAUUUAUAGGCCAGCUCGUAAAGUGCAUGAAAAAUGCGACAUUGCAGCAAAUUGCAGCAAAAAGUAAGUAA---A--A
...(((((((((((((......(((((((.((((..((....))..)))).))).))))...((((....)))))))))))))))))............---.--. ( -31.70)
>DroYak_CAF1 25263 99 - 1
GCCUCCUGCAAUUUGUCAUAAAUUCAGCAAUUUAUAGGCCAGCUCGUAAAGUGCAUGAAAAAUGCGACA-------AAAUUGCAGCAAAAAGUAAGUAAGCAAACA
.....((((((((((((.((..(((((((.((((..((....))..)))).))).))))...)).))).-------)))))))))..................... ( -22.90)
>DroAna_CAF1 13394 83 - 1
GCCUGCUGCCAUUUGUCAUAAAUUCGGUUCGUUAUGGACCGGCUCGUAAACUGCCUAAGAAAUGCGACA-------GAAGUGCAGCAGA----------------A
..((((((((.((((((........(((((.....)))))(((.........)))..........))))-------)).).))))))).----------------. ( -30.60)
>consensus
GCCUGCUGCAAUUUGUCAUAAAUUCAGCAAGUUAUAGGCCAGCUCGUAAAGUGCAUGAAAAAUGCGACA_______AAAUUGCAGCAAAAAGUAAGUAA___A__A
...((((((((((((((.((..(((((((..(((..((....))..)))..))).))))...)).))))........))))))))))................... (-19.22 = -19.97 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:21 2006