Locus 4656

Sequence ID 2L_DroMel_CAF1
Location 13,344,204 – 13,344,315
Length 111
Max. P 0.725807
window7360 window7361

overview

Window 0

Location 13,344,204 – 13,344,315
Length 111
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 80.51
Mean single sequence MFE -31.37
Consensus MFE -19.19
Energy contribution -18.92
Covariance contribution -0.28
Combinations/Pair 1.22
Mean z-score -1.60
Structure conservation index 0.61
SVM decision value 0.04
SVM RNA-class probability 0.555584
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13344204 111 + 22407834
--CCGAAGGCA-GGUGAAUAAAGUGAUGGCUCCUGCGGCUGGCCGCAUAUGUGGGCCAACUUAGUGGCAAUAAGUUAAAUUAGCAUAAACUUAAUUAGCAUAAGAGUGCUGGGC--
--((.((((((-((.(.((......))..).))))).(((((((((....))))((((......))))...........))))).....)))...((((((....)))))))).-- ( -29.70)
>DroVir_CAF1 78108 113 + 1
AUCCGAAU--A-CGGGAAUACGAAAGCAGCAUUUGCGGCUGGCCGCAUAUGUGGGCCAACUUAGUGGCAAUAAGUUAAAUUAGCAUAAACUUAAUUACCAUAAAAGUGCUGGGCCG
.((((...--.-))))....(....)((((((((((((....))))...(((((((((......))))..((((((...........))))))....))))).))))))))..... ( -34.30)
>DroGri_CAF1 178044 112 + 1
-UGAGAAU--A-CGCGAUUGCAAUGCCAACUUUUGCGGCUGGCCGCAUAUGUGGGCCAACUUAGUGGCAAUAAGUUAAAUUAGCAUAAACUUAAUUACCAUAAAAGUGCUGAGCCG
-.......--.-(((((..(.........)..)))))...((((((((.(((((((((......))))..((((((...........))))))....)))))...)))).).))). ( -26.50)
>DroWil_CAF1 114146 109 + 1
--ACAAAUGCA-GGUGAC--AACCAAAGGUUUUUGCGGUUGGCCGCAUAUGUGGGCCAACUUAGUGGCAAUAAGUUAAAUUAGCAUAAACUUAAUUAGCAUAAAAGUGUUGGCU--
--....((((.-(((...--.)))..((((((.(((((((((((.((....))))))))))...((((.....)))).....))).)))))).....)))).............-- ( -30.30)
>DroMoj_CAF1 95855 113 + 1
UUCGGAAU--G-CGAGAAUCCGACUUCAGCCUUUGCGGCUGGCCGCAUAUGUGGGCCAACUUAGUGGCAAUAAGUUAAAUUAGCAUAAACUUAAUUACCAUAAAAGUGCUGGGCCG
.(((((..--.-......))))).((((((((((((((....))))...(((((((((......))))..((((((...........))))))....))))))))).))))))... ( -34.10)
>DroAna_CAF1 62818 114 + 1
AGGAGAAGCUCGGCAAAAUAAAGUGAUGGGUUCUGCGGCUGGCCGCAUAUGUGGGCCAACUUAGUGGCAAUAAGUUAAAUUAGCAUAAACUUAAUUAGCAUAAGAGUGCCGGGC--
.......((((((((..................(((((....)))))(((((..((((......))))..((((((...........))))))....)))))....))))))))-- ( -33.30)
>consensus
_UCCGAAU__A_CGAGAAUAAAAUGACAGCUUUUGCGGCUGGCCGCAUAUGUGGGCCAACUUAGUGGCAAUAAGUUAAAUUAGCAUAAACUUAAUUACCAUAAAAGUGCUGGGC__
..........................((((...(((((....)))))..((((.((((......))))..((((((...........)))))).....)))).....))))..... (-19.19 = -18.92 +  -0.28) 

alignment

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secondary structure

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dotplot

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Window 1

Location 13,344,204 – 13,344,315
Length 111
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 80.51
Mean single sequence MFE -29.06
Consensus MFE -16.27
Energy contribution -15.72
Covariance contribution -0.55
Combinations/Pair 1.19
Mean z-score -2.17
Structure conservation index 0.56
SVM decision value 0.41
SVM RNA-class probability 0.725807
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13344204 111 - 22407834
--GCCCAGCACUCUUAUGCUAAUUAAGUUUAUGCUAAUUUAACUUAUUGCCACUAAGUUGGCCCACAUAUGCGGCCAGCCGCAGGAGCCAUCACUUUAUUCACC-UGCCUUCGG--
--....((((......))))...((((((...........))))))...((.....(((((((((....)).))))))).(((((.................))-)))....))-- ( -23.93)
>DroVir_CAF1 78108 113 - 1
CGGCCCAGCACUUUUAUGGUAAUUAAGUUUAUGCUAAUUUAACUUAUUGCCACUAAGUUGGCCCACAUAUGCGGCCAGCCGCAAAUGCUGCUUUCGUAUUCCCG-U--AUUCGGAU
.((((....((((...(((((((.(((((...........))))))))))))..)))).))))(((((.(((((....))))).))).))...........(((-.--...))).. ( -31.70)
>DroGri_CAF1 178044 112 - 1
CGGCUCAGCACUUUUAUGGUAAUUAAGUUUAUGCUAAUUUAACUUAUUGCCACUAAGUUGGCCCACAUAUGCGGCCAGCCGCAAAAGUUGGCAUUGCAAUCGCG-U--AUUCUCA-
.(((.((((...((..(((((((.(((((...........))))))))))))..)))))))))...(((((((((((((.......))))))........))))-)--)).....- ( -29.90)
>DroWil_CAF1 114146 109 - 1
--AGCCAACACUUUUAUGCUAAUUAAGUUUAUGCUAAUUUAACUUAUUGCCACUAAGUUGGCCCACAUAUGCGGCCAACCGCAAAAACCUUUGGUU--GUCACC-UGCAUUUGU--
--.((((((........((....((((((...........))))))..))......))))))..(((.((((((.((((((..........)))))--)....)-))))).)))-- ( -24.74)
>DroMoj_CAF1 95855 113 - 1
CGGCCCAGCACUUUUAUGGUAAUUAAGUUUAUGCUAAUUUAACUUAUUGCCACUAAGUUGGCCCACAUAUGCGGCCAGCCGCAAAGGCUGAAGUCGGAUUCUCG-C--AUUCCGAA
(((((..((.......(((((((.(((((...........))))))))))))....(((((((((....)).))))))).))...)))))...(((((......-.--..))))). ( -36.80)
>DroAna_CAF1 62818 114 - 1
--GCCCGGCACUCUUAUGCUAAUUAAGUUUAUGCUAAUUUAACUUAUUGCCACUAAGUUGGCCCACAUAUGCGGCCAGCCGCAGAACCCAUCACUUUAUUUUGCCGAGCUUCUCCU
--((.(((((......(((....((((((...........))))))..........(((((((((....)).))))))).)))((.....)).........))))).))....... ( -27.30)
>consensus
__GCCCAGCACUUUUAUGCUAAUUAAGUUUAUGCUAAUUUAACUUAUUGCCACUAAGUUGGCCCACAUAUGCGGCCAGCCGCAAAAGCCGUCAUUGUAUUCACC_U__AUUCGGA_
......((((..((((.......))))....))))...........((((......(((((((((....)).))))))).))))................................ (-16.27 = -15.72 +  -0.55) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:50 2006