Locus 3153

Sequence ID 2L_DroMel_CAF1
Location 9,019,575 – 9,019,726
Length 151
Max. P 0.647532
window5011 window5012

overview

Window 1

Location 9,019,575 – 9,019,671
Length 96
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 76.13
Mean single sequence MFE -27.00
Consensus MFE -14.56
Energy contribution -15.45
Covariance contribution 0.89
Combinations/Pair 1.23
Mean z-score -1.70
Structure conservation index 0.54
SVM decision value 0.24
SVM RNA-class probability 0.647532
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9019575 96 + 22407834
UCACAUGCAACAUGUUGCAG----UGUUCCAGCCGAACUGUUUUAGC-------CAGCUUAACAUUCUUUCAGUUCCUCGGCAAAUGCUGUUGGAACUGCCGGGACU-
..((.(((((....))))))----)(((((....(((.((((..((.-------...)).)))))))...(((((((.((((....))))..)))))))..))))).- ( -31.20)
>DroVir_CAF1 23320 103 + 1
GUAUGUGCAACUUGUUGUAGCUCAUGUU-----AAAAAUGUCAAAGCAACAUCUCAGCUCGACUCUGGCGCAGUUUCAGAGCAGCUGCUGUGGAAACUACAACAAUUU
...........(((((((((.((.....-----.....(((....))).(((..(((((.(.((((((.......))))))))))))..)))))..)))))))))... ( -26.00)
>DroSec_CAF1 13549 96 + 1
UCACAUGCAACUUGUUGCAG----UGUUCCAGCCGAACUGUUUUAGC-------CAGCUUAACACUCUUUCAGUUCCUCGGCAACUGCUGUUGGAACUGCCGGGACG-
..((.(((((....))))))----)(((((.((.(((.((((..((.-------...)).))))....)))((((((.((((....))))..)))))))).))))).- ( -29.90)
>DroSim_CAF1 14582 96 + 1
UCACAUGCAACUUGUUGCAG----UGUUCCAGCCGAACUGUUUUAGC-------CAGCUUAACACUCUUUCAGUUCCUCGGCAACUGCUGUUGGAACUGCCAGACCG-
.....(((((....)))))(----((((..(((.(............-------).))).)))))(((..(((((((.((((....))))..)))))))..)))...- ( -27.60)
>DroEre_CAF1 12753 96 + 1
UCACAUGCAACUUGCCUUGG----UGUUCCAGCCGAACUGUUUCAGC-------CAGCUUAACACGCUUUUAGUUCCGCGGCAACUGCUGUUGGAACUGCCACGAUU-
......((.....))(.(((----(((((((((.((((((....(((-------...........)))..)))))).(((....).)).)))))))).)))).)...- ( -25.00)
>DroYak_CAF1 13318 96 + 1
UCACUUACAACUUGCUUCAA----UGUUCGAGCCGAACUGCUUUAGC-------CAUCUUAACACUCGUUCAGUUCCUCGGCAACUGCUGUUGGAACUGCCAGGACU-
..........((((......----.(((.((((......)))).)))-------................(((((((.((((....))))..))))))).))))...- ( -22.30)
>consensus
UCACAUGCAACUUGUUGCAG____UGUUCCAGCCGAACUGUUUUAGC_______CAGCUUAACACUCUUUCAGUUCCUCGGCAACUGCUGUUGGAACUGCCAGGACU_
.....(((((....)))))......((((.....)))).(((..(((.........))).))).......(((((((.((((....))))..)))))))......... (-14.56 = -15.45 +   0.89)

alignment

Postscript

secondary structure

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dotplot

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Window 2

Location 9,019,632 – 9,019,726
Length 94
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 82.70
Mean single sequence MFE -29.53
Consensus MFE -17.85
Energy contribution -17.77
Covariance contribution -0.08
Combinations/Pair 1.17
Mean z-score -2.12
Structure conservation index 0.60
SVM decision value 0.03
SVM RNA-class probability 0.548147
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9019632 94 + 22407834
UUCAGUUCCUCGGCAAAUGCUGUUGGAACUGCCGGGACUACGCAAGGACUACGCUCCUUUGGAUCUUGAGAUUGCGUUAAAAUUACGUGUUCCA
..(((((((.((((....))))..)))))))..(((((.(((.((.....((((..(((........)))...)))).....)).)))))))). ( -31.30)
>DroSec_CAF1 13606 94 + 1
UUCAGUUCCUCGGCAACUGCUGUUGGAACUGCCGGGACGCCGCAAGGACUACGCUCCUUUGGAUCUUGAGAUUGCGUUAAAAUUACGUGUUCCA
..(((((((.((((....))))..)))))))..(((((((.(((((((......)))))..((((....))))))((.......))))))))). ( -32.60)
>DroSim_CAF1 14639 94 + 1
UUCAGUUCCUCGGCAACUGCUGUUGGAACUGCCAGACCGCCGCAAGGACUACGCUCCUUUGGAUCUUGAGAUUGCGUUAAAAUUACGUGUUCCA
..(((((((.((((....))))..)))))))(.(((...(((.(((((......)))))))).))).).((..((((.......))))..)).. ( -27.00)
>DroEre_CAF1 12810 93 + 1
UUUAGUUCCGCGGCAACUGCUGUUGGAACUGCCACGAUUCCGCAAGGACUACGCUCCUGCGAAGCUUGGUAUAACGUGAAA-CUACGUGUUCCA
...(((((((((((....)))).)))))))((((.(..(((....)))((.(((....))).))).))))...(((((...-.)))))...... ( -31.20)
>DroYak_CAF1 13375 94 + 1
UUCAGUUCCUCGGCAACUGCUGUUGGAACUGCCAGGACUCCGCAAGGACUACGCUCCUUCGGAUCUUGAGAUAAUGUUAAAGUUACGUGUGCCA
..(((((((.((((....))))..))))))).(((((.((((.(((((......)))))))))))))).....((((.......))))...... ( -31.90)
>DroAna_CAF1 18787 92 + 1
UUCAGUUCCAUGGUGACUGCUUUUGGAACUGCCAGAACUUCGCAAGGACUACGCUUCUAUUUGCCUCACUAUC--ACUAAAAUUACGUAGUCCC
..((((((((.(((....)))..))))))))..............((((((((.....((((...........--....))))..)))))))). ( -23.16)
>consensus
UUCAGUUCCUCGGCAACUGCUGUUGGAACUGCCAGGACUCCGCAAGGACUACGCUCCUUUGGAUCUUGAGAUUGCGUUAAAAUUACGUGUUCCA
..(((((((.((((....))))..)))))))..............(((.((((................................)))).))). (-17.85 = -17.77 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:37 2006