Locus 3772

Sequence ID 2L_DroMel_CAF1
Location 11,010,127 – 11,010,324
Length 197
Max. P 0.683075
window5945 window5946

overview

Window 5

Location 11,010,127 – 11,010,244
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.77
Mean single sequence MFE -41.80
Consensus MFE -29.98
Energy contribution -31.54
Covariance contribution 1.56
Combinations/Pair 1.11
Mean z-score -1.80
Structure conservation index 0.72
SVM decision value 0.31
SVM RNA-class probability 0.683075
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11010127 117 - 22407834
CCAGAAGGCGGGCAAUCACCAGGGCUUCUGCAUUUGGUUCGAUGUACAGUUUCCUGGCGAAGAU---UUUGUUCUAAGCACAUCGCCGCUAUCCCCGCCAACGCAUUGGAAGCAGUGUGU
......((((((.....((((((((....)).)))))).((((((.(((....)))((..(((.---.....)))..))))))))........)))))).((((((((....)))))))) ( -42.10)
>DroSec_CAF1 5006 117 - 1
CCAGAAGGCGGGCAAUCACCAGGGCUUCUGCAUUUGGUUCGAUGUACGGUUUCCUGGCGAAGAA---UUUGUUCUAAGCACAUCGCCGCUCUCCCCGCCAACGCACUGGAAGCAGUGUGU
......((((((...((.((((((..((((((((......)))))).))..)))))).))((((---....)))).(((........)))...)))))).((((((((....)))))))) ( -44.00)
>DroSim_CAF1 5528 117 - 1
CCAGAAGGCGGGCAAUCACCAGGGCUUCUGCAUUUGGUUCGAUGUACGGUUUCCUGGCGAAGAA---UUUGUUCUGAGCACAUCGCCGCUCUCCCCGCCAACGCAUUGGAAGCAGUGUGU
......((((((...((.((((((..((((((((......)))))).))..)))))).))((((---....))))((((........))))..)))))).((((((((....)))))))) ( -45.40)
>DroYak_CAF1 5001 117 - 1
GCAGAAGGCGGGCAACCAUCAGGGCUUCUGCAUUUGGUUUGAUGUACGAUUCCCUGGCGAAGAU---UUUGUUCUAAGCACAUCCCCACUUUCCACGCCAACGCAUUGGAAGCAGUGUGU
((.(((((.(((.......(((((..((((((((......)))))).))..)))))((..(((.---.....)))..)).....))).)))))...))..((((((((....)))))))) ( -39.80)
>DroPer_CAF1 5222 120 - 1
ACAAAGAGGGGGAAACCAUCAAGGAUUUUGCAUAUGGUUUGAGGUGCUAUUUCCAGGCAAUGAAGCCGUGAUUCUUAGCACAUCUCCUUUCGCCCCGGAAACGCAUUGGAAGCAGUGUGU
.......((((((((((.....))...........((...((.((((((..((..(((......)))..))....)))))).)).)))))).))))....((((((((....)))))))) ( -37.70)
>consensus
CCAGAAGGCGGGCAAUCACCAGGGCUUCUGCAUUUGGUUCGAUGUACGGUUUCCUGGCGAAGAA___UUUGUUCUAAGCACAUCGCCGCUCUCCCCGCCAACGCAUUGGAAGCAGUGUGU
......((((((.....((((((((....)).))))))..(((((.(((....)))((..((((.......))))..))))))).........)))))).((((((((....)))))))) (-29.98 = -31.54 +   1.56)

alignment

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secondary structure

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dotplot

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Window 6

Location 11,010,204 – 11,010,324
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.75
Mean single sequence MFE -40.36
Consensus MFE -31.94
Energy contribution -31.62
Covariance contribution -0.32
Combinations/Pair 1.36
Mean z-score -1.52
Structure conservation index 0.79
SVM decision value 0.02
SVM RNA-class probability 0.544565
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11010204 120 - 22407834
GUCGUCUUUCACUGGAUGAAUCUGCUGGAUGUGGAAGCCAGCGAUUUGGACAGCAUUCAGUUCAAGGAGGUAAUAACAGCCCAGAAGGCGGGCAAUCACCAGGGCUUCUGCAUUUGGUUC
.((((((......))))))....((..((((..((((((..(..(((((((........)))))))..).........((((.......)))).........))))))..))))..)).. ( -43.20)
>DroSec_CAF1 5083 120 - 1
GUCGUCUUUCACUGGAUGAAUCUGCUGGAUGUGGAGGCCAGCGAUUUGGACAGCAUUCAGUUCAAGGAGGUUAUAACAGCCCAGAAGGCGGGCAAUCACCAGGGCUUCUGCAUUUGGUUC
.((((((......))))))....((..((((..((((((......((((((........))))))((.((((......((((.......)))))))).))..))))))..))))..)).. ( -42.90)
>DroSim_CAF1 5605 120 - 1
GUCGUCUUUCACAGGAUGAAUCUGCUGGAUGUGGAGGCCAGCGAUUUGGACAGCAUUCAGUUCAAGGAGGUUAUAACAGCCCAGAAGGCGGGCAAUCACCAGGGCUUCUGCAUUUGGUUC
.((((((......))))))....((..((((..((((((......((((((........))))))((.((((......((((.......)))))))).))..))))))..))))..)).. ( -42.70)
>DroYak_CAF1 5078 120 - 1
GUCGUCUUUCACUGGAUGAAUCUGCUGGAUGUGGAGGCCAGCGAUUUGGACAGCAUUCAGUUUAAGGAGGUGAUAACAGCGCAGAAGGCGGGCAACCAUCAGGGCUUCUGCAUUUGGUUU
.((((((......))))))....((..((((..((((((.(((.(((((((........)))))))...((....))..)))....(..((....))..)..))))))..))))..)).. ( -41.40)
>DroPer_CAF1 5302 120 - 1
GUCGUUCUUCAUUGGAUGAACUUGCUCGAUGUGGAUAUGGCUGAACUUGAGGAAGUUCGUUUUAAGGAUGUCGUUGCGGCACAAAGAGGGGGAAACCAUCAAGGAUUUUGCAUAUGGUUU
(.(((((((....((((((((((.(((((.((............))))))).)))))))))).))))))).)..(((((..(...((..((....)).))...)...)))))........ ( -31.60)
>consensus
GUCGUCUUUCACUGGAUGAAUCUGCUGGAUGUGGAGGCCAGCGAUUUGGACAGCAUUCAGUUCAAGGAGGUUAUAACAGCCCAGAAGGCGGGCAAUCACCAGGGCUUCUGCAUUUGGUUC
.((((((......))))))....((..((((..((((((.((..(((((((........)))))))..((((.....))))......))((....)).....))))))..))))..)).. (-31.94 = -31.62 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:48 2006