Locus 177

Sequence ID 2R_DroMel_CAF1
Location 1,434,898 – 1,435,098
Length 200
Max. P 0.619050
window400 window401 window402

overview

Window 0

Location 1,434,898 – 1,435,018
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.42
Mean single sequence MFE -30.90
Consensus MFE -26.94
Energy contribution -26.88
Covariance contribution -0.06
Combinations/Pair 1.10
Mean z-score -1.66
Structure conservation index 0.87
SVM decision value 0.16
SVM RNA-class probability 0.614153
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1434898 120 + 20766785
CACUGUGGCCUCAACGUUAGUUGACGGCAGCAAUACUCUUGUCUCAGACGUUCCUUUAAACUCGAACGAAACAAAGGAUGAGUUGGAAUUCCUUAUAUCCGAUGUUAUCCAGCAAAUAAC
...(((.((((((((....))))).))).)))......((((......(((((..........))))).......((((((((((((..........)))))).)))))).))))..... ( -29.60)
>DroSec_CAF1 52077 120 + 1
CACUGUGGCCUCAACGUUAGUUGACGGCAGCAAUACUCUUGUCUCAGACGUUCCUUUAAACUCGAACGAAACAAAGGAUGAGCUGGAAUUCCUUAUAUCCGAUGUUAUCCAGCAAAUAAC
...(((.((((((((....))))).))).)))......((((......(((((..........))))).((((..(((((....((....))...)))))..)))).....))))..... ( -27.80)
>DroEre_CAF1 51438 120 + 1
CACUGUGGCCUCAACGUUAGUUGACGGCAGCAAUUCUCUUGUCUCAGAUGUUCCUUUAAAUUCGAACGAGACGAAGGAUGAGCUGGAAUUCCUCAUAUCCGAUGUUAUCCAGCAAAUAAC
...(((.((((((((....))))).))).)))(((((.(((((((....((((..........))))))))))))))))..((((((...(.((......)).)...))))))....... ( -35.40)
>DroYak_CAF1 56474 120 + 1
CACUGUGGCCUCAACGUUAGUUGACGGCAGUAAUAAUCUUGUCUCAGAUGUUCCUUUAAAUUCGAACGAGACAAAGGAUGAGCUGGAAUUCCUUAUAUCCGAUGUUAUUCAGCAAAUAAC
..(((..((((((((....))))).)))(((((((.(((((((((....((((..........))))))))))).(((((....((....))...)))))))))))))))))........ ( -30.80)
>consensus
CACUGUGGCCUCAACGUUAGUUGACGGCAGCAAUACUCUUGUCUCAGACGUUCCUUUAAACUCGAACGAAACAAAGGAUGAGCUGGAAUUCCUUAUAUCCGAUGUUAUCCAGCAAAUAAC
.......((((((((....))))).))).((.......(((((((....((((..........))))))))))).((((((..((((..........))))...)))))).))....... (-26.94 = -26.88 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,434,898 – 1,435,018
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 95.42
Mean single sequence MFE -33.05
Consensus MFE -30.24
Energy contribution -30.30
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.50
Structure conservation index 0.91
SVM decision value 0.11
SVM RNA-class probability 0.588139
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1434898 120 - 20766785
GUUAUUUGCUGGAUAACAUCGGAUAUAAGGAAUUCCAACUCAUCCUUUGUUUCGUUCGAGUUUAAAGGAACGUCUGAGACAAGAGUAUUGCUGCCGUCAACUAACGUUGAGGCCACAGUG
((((((.....)))))).((((((....((....))......(((((((.(((....)))..)))))))..))))))........(((((..(((.(((((....))))))))..))))) ( -33.30)
>DroSec_CAF1 52077 120 - 1
GUUAUUUGCUGGAUAACAUCGGAUAUAAGGAAUUCCAGCUCAUCCUUUGUUUCGUUCGAGUUUAAAGGAACGUCUGAGACAAGAGUAUUGCUGCCGUCAACUAACGUUGAGGCCACAGUG
((((((.....)))))).((((((....((....))......(((((((.(((....)))..)))))))..))))))........(((((..(((.(((((....))))))))..))))) ( -33.30)
>DroEre_CAF1 51438 120 - 1
GUUAUUUGCUGGAUAACAUCGGAUAUGAGGAAUUCCAGCUCAUCCUUCGUCUCGUUCGAAUUUAAAGGAACAUCUGAGACAAGAGAAUUGCUGCCGUCAACUAACGUUGAGGCCACAGUG
.......((((((.....(((....))).....))))))...(((((.(((((((((..........))))....)))))))).))((((..(((.(((((....))))))))..)))). ( -35.20)
>DroYak_CAF1 56474 120 - 1
GUUAUUUGCUGAAUAACAUCGGAUAUAAGGAAUUCCAGCUCAUCCUUUGUCUCGUUCGAAUUUAAAGGAACAUCUGAGACAAGAUUAUUACUGCCGUCAACUAACGUUGAGGCCACAGUG
.......(((((((((....((((....((....)).....))))((((((((((((..........))))....)))))))).)))))...(((.(((((....))))))))..)))). ( -30.40)
>consensus
GUUAUUUGCUGGAUAACAUCGGAUAUAAGGAAUUCCAGCUCAUCCUUUGUCUCGUUCGAAUUUAAAGGAACAUCUGAGACAAGAGUAUUGCUGCCGUCAACUAACGUUGAGGCCACAGUG
((((((.....)))))).((((((....((....))......(((((((..((....))...)))))))..)))))).........((((..(((.(((((....))))))))..)))). (-30.24 = -30.30 +   0.06)

alignment

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secondary structure

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dotplot

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Window 2

Location 1,434,978 – 1,435,098
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.97
Mean single sequence MFE -37.45
Consensus MFE -29.90
Energy contribution -29.52
Covariance contribution -0.38
Combinations/Pair 1.14
Mean z-score -1.59
Structure conservation index 0.80
SVM decision value 0.17
SVM RNA-class probability 0.619050
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1434978 120 - 20766785
UCAGUUGGGCGAAACUGGUCAGGCGAUUGGAAUCGUCGGCUGGUUGGGCGUUUGGCGGGAGCUUGUUUUGAUCGCCUUGGGUUAUUUGCUGGAUAACAUCGGAUAUAAGGAAUUCCAACU
...((..((((.(((..(((.((((((....)))))))))..)))...))))..))((((.(((((((((((....((.(((.....))).))....)))))).)))))...)))).... ( -38.80)
>DroSec_CAF1 52157 120 - 1
UCAGUUGGGCGAAACUGGUCAGGCGAUUGGAAUCGUCGGCUGGUUGGGCGUUUGGCGGGAGCUUGUUUUGAUCGCCUUGGGUUAUUUGCUGGAUAACAUCGGAUAUAAGGAAUUCCAGCU
...((..((((.(((..(((.((((((....)))))))))..)))...))))..))((((.(((((((((((....((.(((.....))).))....)))))).)))))...)))).... ( -38.80)
>DroEre_CAF1 51518 120 - 1
UCAGUUGGGCGAAAUUGGUCAGGCGAUUGGAAUCGUCGGCUGGUUGGGCUUUUGGCGGGAUCUUGUUUUGAUCGAUUUGAGUUAUUUGCUGGAUAACAUCGGAUAUGAGGAAUUCCAGCU
(((((..(((..(((..(((.((((((....)))))))))..)))..))..)..))..((((.......))))....))).......((((((.....(((....))).....)))))). ( -35.60)
>DroYak_CAF1 56554 114 - 1
UUAGUUGGGCGAAAUUGGUCAGGCGAUUGGAAUCGUCUGCUGGUUUGGCUUUUGUCGGG------UUUUCAUCGUUUUGAGUUAUUUGCUGAAUAACAUCGGAUAUAAGGAAUUCCAGCU
..((((((((.((((..(.((((((((....)))))))))..)))).))...((((.((------(..(((......)))(((((((...)))))))))).)))).........)))))) ( -36.60)
>consensus
UCAGUUGGGCGAAACUGGUCAGGCGAUUGGAAUCGUCGGCUGGUUGGGCGUUUGGCGGGAGCUUGUUUUGAUCGCCUUGAGUUAUUUGCUGGAUAACAUCGGAUAUAAGGAAUUCCAGCU
..((((((((..(((..(((.((((((....)))))))))..)))..))....(((((.............)))))((((((((((.....)))))).))))............)))))) (-29.90 = -29.52 +  -0.38)

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 09:31:19 2006