Locus 2445

Sequence ID 2L_DroMel_CAF1
Location 6,693,595 – 6,693,737
Length 142
Max. P 0.980215
window3923 window3924

overview

Window 3

Location 6,693,595 – 6,693,704
Length 109
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 79.18
Mean single sequence MFE -31.41
Consensus MFE -18.78
Energy contribution -18.87
Covariance contribution 0.09
Combinations/Pair 1.15
Mean z-score -2.33
Structure conservation index 0.60
SVM decision value 1.15
SVM RNA-class probability 0.922693
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6693595 109 + 22407834
AAGCGGCGUUUAUUUUGCCACAGGCCACUUAUCUGCGAGGUUG-----AGGUUGGGGC-UCCAGCUCCAGCUCCAUCUCCAACUCCAACUUCAACUCCUUCUCUAUCUACAACUC
..((((((.......))))..((....)).....))(((((((-----..(((((((.-...(((....)))....)))))))..)))))))....................... ( -31.10)
>DroVir_CAF1 17607 100 + 1
AAGCGGCGUUUAUUUUGCCACAGGCCACUUAUCUGUGAGGUUGGCAGUAGGUUG--GCUGCCGGCUCCAGCUUCAGCUUCAGCUUUAGCCGCGACUCGAUCU-------------
..(((((.........((((((((.......)))))).((((((((((......--))))))))))...))...(((....)))...)))))..........------------- ( -34.80)
>DroSec_CAF1 6612 103 + 1
AAGCGGCGUUUAUUUUGCCACAGGCCACUUAUCUGCGAGGUUG-----AGGUUGGGGC-UCCAGCUCCAGCUCCA------GCUCAAACUUCAACUCCUUCUCCAUCUACAACUC
..((((((.......))))..((....)).....))(..((((-----(((((.((((-(..(((....)))..)------)))).)))))))))..)................. ( -29.80)
>DroSim_CAF1 6540 103 + 1
AAGCGGCGUUUAUUUUGCCACAGGCCACUUAUCUGCGAGGUUG-----AGGUUGGGGC-UCCAGCUCCAGCUCCA------GCUCCAACUUCAACUCCUUCUCCAUCUACAACUC
..((((((.......))))..((....)).....))(..((((-----((((((((((-(..(((....)))..)------))))))))))))))..)................. ( -36.30)
>DroEre_CAF1 6486 91 + 1
AAGCGGCGUUUAUUUUGCCACAGGCCACUUAUCUGCGAGGUUG-----AGGUUGGGGC-UCCAGCUCCAGCUCCA------ACUCCAGCUC------------CAUCUCCAACUC
..(.((((.......)))).).((........(((.(((.(((-----..((((((((-....))))))))..))------)))))))...------------.....))..... ( -30.59)
>DroYak_CAF1 6467 103 + 1
AAGCGGCGUUUAUUUUGCCACAGGCCACUUAUCUGCGAGGUUC-----AGGCUGGGGA-UCCAACUCCAGCUCCA------GCUCCAUCUCCAUCUCCGACUCCAUCUCCAGCUC
.(((((((.......))))...((.........((.(((((..-----.((((((((.-...........)))))------)))..))))))).........)).......))). ( -25.87)
>consensus
AAGCGGCGUUUAUUUUGCCACAGGCCACUUAUCUGCGAGGUUG_____AGGUUGGGGC_UCCAGCUCCAGCUCCA______GCUCCAACUUCAACUCCUUCUCCAUCUACAACUC
..((((((.......))))..((....)).....))(((..........(((((((((.....)))))))))..........))).............................. (-18.78 = -18.87 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 6,693,635 – 6,693,737
Length 102
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 85.98
Mean single sequence MFE -24.60
Consensus MFE -20.12
Energy contribution -20.20
Covariance contribution 0.08
Combinations/Pair 1.10
Mean z-score -2.37
Structure conservation index 0.82
SVM decision value 1.86
SVM RNA-class probability 0.980215
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6693635 102 + 22407834
UUGAGGUUGGGGCUCCAGCUCCAGCUCCAUCUCCAACUCCAACUUCAACUCCUUCUCUAUCUACAACUCCGACUCCGGCUGCAGCUUUUCAGCUCUUUGGCU
.((..((((((((....))))))))..)).......................................((((....(((((........)))))..)))).. ( -22.30)
>DroSec_CAF1 6652 96 + 1
UUGAGGUUGGGGCUCCAGCUCCAGCUCCA------GCUCAAACUUCAACUCCUUCUCCAUCUACAACUCCGACUCCGGCUGCAGCUUUUCAGCUCUUUGGCU
((((((((.(((((..(((....)))..)------)))).))))))))....................((((....(((((........)))))..)))).. ( -24.70)
>DroSim_CAF1 6580 96 + 1
UUGAGGUUGGGGCUCCAGCUCCAGCUCCA------GCUCCAACUUCAACUCCUUCUCCAUCUACAACUCCGACUCCGGCUGCAGCUUUUCAGCUCUUUGGCU
((((((((((((((..(((....)))..)------)))))))))))))....................((((....(((((........)))))..)))).. ( -31.20)
>DroEre_CAF1 6526 84 + 1
UUGAGGUUGGGGCUCCAGCUCCAGCUCCA------ACUCCAGCUC------------CAUCUCCAACUCCGACUCCGGCUGCAGCUUUUCAGCUCUUUGGCU
(((..(((((((((........)))))))------))..)))...------------...........((((....(((((........)))))..)))).. ( -23.10)
>DroYak_CAF1 6507 96 + 1
UUCAGGCUGGGGAUCCAACUCCAGCUCCA------GCUCCAUCUCCAUCUCCGACUCCAUCUCCAGCUCCAACUCCGGCUGCAGCUUUUCAGCUCUUUGGCU
....((((((((((........(((....------)))..............(....)))))))))))((((....(((((........)))))..)))).. ( -21.70)
>consensus
UUGAGGUUGGGGCUCCAGCUCCAGCUCCA______GCUCCAACUUCAACUCCUUCUCCAUCUACAACUCCGACUCCGGCUGCAGCUUUUCAGCUCUUUGGCU
.((.(((((((((....))))))))).)).......................................((((....(((((........)))))..)))).. (-20.12 = -20.20 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:07 2006