Locus 5897

Sequence ID 2L_DroMel_CAF1
Location 16,664,052 – 16,664,159
Length 107
Max. P 0.712663
window9354 window9355

overview

Window 4

Location 16,664,052 – 16,664,159
Length 107
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 80.41
Mean single sequence MFE -28.82
Consensus MFE -19.25
Energy contribution -20.03
Covariance contribution 0.78
Combinations/Pair 1.25
Mean z-score -1.25
Structure conservation index 0.67
SVM decision value -0.05
SVM RNA-class probability 0.508093
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16664052 107 + 22407834
UUAAGUAUAUUGUACUCACAUAGAAAGGUGAAGUAGGAGGCGCUGUGGCAGAUGAACUUAAUGAAGGGUUUUCGCAUUGUUUGGCCAAUGCUGGAGUAGGGUGCCAG
.........((.(((((((........))).)))).))((((((.((.(.((.((((((......))))))))((((((......))))))....))).)))))).. ( -28.50)
>DroGri_CAF1 75005 88 + 1
-------------------ACAGAAAUGUGAAAUACGAGGCGCUGUGGCAGAUGAACUUGAUGAAGGGCUUCCGCAUUGUCUGCCCAAUGGCCGAAUAGGGCGCCAG
-------------------(((....))).........(((((((.((((((..(.(((.....)))((....)).)..))))))))....((.....))))))).. ( -29.40)
>DroSec_CAF1 118745 107 + 1
UUAAGUAUAGUUUACUCACAUAGAAAGGUGAAGUAGGAGGCGCUGUGGCAGAUGAACUUGAUGAAGGGUUUUCGCAUUGUUUGGCCAAUGCUGGAGUAGGGUGCCAG
..........(((((((((........))).)))))).((((((.((.(.((.((((((......))))))))((((((......))))))....))).)))))).. ( -28.10)
>DroEre_CAF1 119691 107 + 1
UUGAAAGGAGUAUGCUCACAUAGAAAGGUGAAGUAGGAGGCGCUGUGGCAGAUGAACUUGAUGAAGGGCUUCCGCAUCGUUUGGCCAAUGCUGGAGUAGGGCGCCAG
.........(.((((((((........))))....((((((.((....(((......)))....)).)))))))))))...(((((..(((....)))..).)))). ( -30.00)
>DroYak_CAF1 118849 107 + 1
UUAAGUAAGGUGUGCUUACACAGAAAGGUGAAGUACGAGGCGCUGUGGCAUAUGAACUUGAUGAAAGGUUUCCGCAUUGUUUGGCCAAUGCUGGAGUAGGGUGCCAG
..........(((((((.(((......)))))))))).((((((.((.(.....(((((......)))))(((((((((......)))))).)))))).)))))).. ( -33.30)
>DroAna_CAF1 60815 105 + 1
UUUA--AAAAUUUACUUACACAAGAAAGUAAAGUAAGAGGCACUGUGACAAAUGAACUUAAUGAAGGGCUUUCGCAUGGUCUGUCCAAUGCUGGAAUAGGGCGCCAG
....--....(((((((((........)).))))))).(((..(((((.....(..(((....)))..)..)))))..((((.((((....))))...))))))).. ( -23.60)
>consensus
UUAAGUAAAGUGUACUCACACAGAAAGGUGAAGUAGGAGGCGCUGUGGCAGAUGAACUUGAUGAAGGGCUUCCGCAUUGUUUGGCCAAUGCUGGAGUAGGGCGCCAG
............(((((((........))).))))...((((((.((.........(((.....)))..((((((((((......)))))).)))))).)))))).. (-19.25 = -20.03 +   0.78)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,664,052 – 16,664,159
Length 107
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 80.41
Mean single sequence MFE -21.45
Consensus MFE -13.06
Energy contribution -12.65
Covariance contribution -0.41
Combinations/Pair 1.29
Mean z-score -1.88
Structure conservation index 0.61
SVM decision value 0.38
SVM RNA-class probability 0.712663
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16664052 107 - 22407834
CUGGCACCCUACUCCAGCAUUGGCCAAACAAUGCGAAAACCCUUCAUUAAGUUCAUCUGCCACAGCGCCUCCUACUUCACCUUUCUAUGUGAGUACAAUAUACUUAA
.(((((....(((...((((((......))))))(((.....)))....))).....)))))..........((((.(((........)))))))............ ( -19.50)
>DroGri_CAF1 75005 88 - 1
CUGGCGCCCUAUUCGGCCAUUGGGCAGACAAUGCGGAAGCCCUUCAUCAAGUUCAUCUGCCACAGCGCCUCGUAUUUCACAUUUCUGU-------------------
..(((((((.....))....((((((((....((....)).(((....)))....)))))).)))))))...................------------------- ( -23.20)
>DroSec_CAF1 118745 107 - 1
CUGGCACCCUACUCCAGCAUUGGCCAAACAAUGCGAAAACCCUUCAUCAAGUUCAUCUGCCACAGCGCCUCCUACUUCACCUUUCUAUGUGAGUAAACUAUACUUAA
.(((((....(((...((((((......))))))(((.....)))....))).....)))))..........((((.(((........)))))))............ ( -19.80)
>DroEre_CAF1 119691 107 - 1
CUGGCGCCCUACUCCAGCAUUGGCCAAACGAUGCGGAAGCCCUUCAUCAAGUUCAUCUGCCACAGCGCCUCCUACUUCACCUUUCUAUGUGAGCAUACUCCUUUCAA
..(((((.....(((.((((((......))))))))).(..(((....)))..)..........)))))......(((((........))))).............. ( -23.10)
>DroYak_CAF1 118849 107 - 1
CUGGCACCCUACUCCAGCAUUGGCCAAACAAUGCGGAAACCUUUCAUCAAGUUCAUAUGCCACAGCGCCUCGUACUUCACCUUUCUGUGUAAGCACACCUUACUUAA
..(((.......(((.((((((......))))))))).....................((....)))))..((.((((((......))).))).))........... ( -21.50)
>DroAna_CAF1 60815 105 - 1
CUGGCGCCCUAUUCCAGCAUUGGACAGACCAUGCGAAAGCCCUUCAUUAAGUUCAUUUGUCACAGUGCCUCUUACUUUACUUUCUUGUGUAAGUAAAUUUU--UAAA
................((((((((((((....((....)).(((....)))....)))))).))))))...(((((((((......))).)))))).....--.... ( -21.60)
>consensus
CUGGCACCCUACUCCAGCAUUGGCCAAACAAUGCGAAAACCCUUCAUCAAGUUCAUCUGCCACAGCGCCUCCUACUUCACCUUUCUAUGUGAGUAAACUAUACUUAA
.(((((..........((((((......))))))(((.....)))............)))))............................................. (-13.06 = -12.65 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:43 2006