Locus 5106

Sequence ID 2L_DroMel_CAF1
Location 14,532,692 – 14,532,824
Length 132
Max. P 0.997461
window8134 window8135

overview

Window 4

Location 14,532,692 – 14,532,785
Length 93
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 66.99
Mean single sequence MFE -26.21
Consensus MFE -11.03
Energy contribution -12.03
Covariance contribution 1.00
Combinations/Pair 1.50
Mean z-score -1.77
Structure conservation index 0.42
SVM decision value 0.63
SVM RNA-class probability 0.804222
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14532692 93 + 22407834
UAGCUUUUUGUUCAGGGGGGCCUUAUUCUCUGGCCCUUCUACU---------------------------UUCACUGGAGCCUUAUCCGAUUUCUUGGUGCCGAAACCAAGGAUGGAACC
..(((((.((...(((((((((.........)))))))))...---------------------------..))..)))))....((((..((((((((......))))))))))))... ( -32.70)
>DroSec_CAF1 64684 93 + 1
UAAUUUUUUGUUCAGAGAGGGCUGCUUCUCUGGGACUUCUACU---------------------------UUCACUGGAGCCUUAUUCGAUUUCUUGGUGCCGAAACCAAGAAUAGAACC
............((((((((....))))))))((.((((....---------------------------......))))))...(((...((((((((......))))))))..))).. ( -27.80)
>DroSim_CAF1 50042 93 + 1
UAGUUUUUUGUUCAGAGCGGGCUGCUUCUCUGGGACUUCUACU---------------------------UUCACUGGAGCCUUAUUCGAUUUCUUGGUGCCGAAACCAAGAAUAGAACC
.........((((.(((..((..(((((..((..(.......)---------------------------..))..)))))))..)))...((((((((......))))))))..)))). ( -25.60)
>DroEre_CAF1 59936 90 + 1
UAGUUUCUUGUUCAGACUGAAC---UUAUCUGAAACUUCUCCU---------------------------UUCACUGGAGCCUGAUCCGCUAUCUUGGUGCCGAAUCCAUGAAGAGAACC
.((((((..((((.....))))---......))))))((((..---------------------------((((.((((.......(((......))).......))))))))))))... ( -19.44)
>DroYak_CAF1 55129 81 + 1
UAGUUUUUUGUUCAGGG------------GUGAGCCCUCUCCU---------------------------UUAGCUGGAAUCUUAUCCGAUUUCUUGGUGCCGAAUCCAAGAAUAGAGCU
.........((((..((------------(((((.....(((.---------------------------......)))..)))))))...(((((((........)))))))..)))). ( -21.60)
>DroAna_CAF1 2104 120 + 1
CAGUUUCUUCUUCGAAGUUAUCGGUUUUGCUGAUUCUACUCCUUGCACGGGGCUAUUGUCCAUCUUGGACUUCACGGGAGCCUUCCCCAUUUUCUUUGGGCCCAAUCUGAAAAUGGACCC
......(((((..(((((((((((.....)))))...............((((....))))......))))))..)))))......((((((((.(((....)))...)))))))).... ( -30.10)
>consensus
UAGUUUUUUGUUCAGAGUGGGCUG_UUCUCUGAGACUUCUACU___________________________UUCACUGGAGCCUUAUCCGAUUUCUUGGUGCCGAAACCAAGAAUAGAACC
...........((((((..........))))))...(((((...................................(((......)))...((((((((......))))))))))))).. (-11.03 = -12.03 +   1.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,532,732 – 14,532,824
Length 92
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 73.54
Mean single sequence MFE -24.66
Consensus MFE -9.51
Energy contribution -10.15
Covariance contribution 0.64
Combinations/Pair 1.23
Mean z-score -2.61
Structure conservation index 0.39
SVM decision value 2.86
SVM RNA-class probability 0.997461
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14532732 92 + 22407834
ACU---------------------------UUCACUGGAGCCUUAUCCGAUUUCUUGGUGCCGAAACCAAGGAUGGAACCCUCCACAACCAAAGCCAAAGCUAAAAUUAAUACCAAAGU
(((---------------------------((...(((((.....((((..((((((((......))))))))))))...))))).......(((....)))............))))) ( -21.00)
>DroSec_CAF1 64724 92 + 1
ACU---------------------------UUCACUGGAGCCUUAUUCGAUUUCUUGGUGCCGAAACCAAGAAUAGAACCCUCCACAACCAUAGCCAAAGCUAAAAUUAACAGCAAAGU
(((---------------------------(((..(((((.....(((...((((((((......))))))))..)))..)))))......((((....)))).........).))))) ( -21.90)
>DroSim_CAF1 50082 92 + 1
ACU---------------------------UUCACUGGAGCCUUAUUCGAUUUCUUGGUGCCGAAACCAAGAAUAGAACCCUCCACAACCAUAGCCAAAGCUAAAAUUAACAGCAAAGU
(((---------------------------(((..(((((.....(((...((((((((......))))))))..)))..)))))......((((....)))).........).))))) ( -21.90)
>DroYak_CAF1 55157 92 + 1
CCU---------------------------UUAGCUGGAAUCUUAUCCGAUUUCUUGGUGCCGAAUCCAAGAAUAGAGCUCUCCACAACCGCAGCCAAAGCUAAAAUUAACAGCAAAGU
.((---------------------------((.((((((.(((........(((((((........))))))).)))..))...........(((....)))........)))))))). ( -17.50)
>DroAna_CAF1 2144 119 + 1
CCUUGCACGGGGCUAUUGUCCAUCUUGGACUUCACGGGAGCCUUCCCCAUUUUCUUUGGGCCCAAUCUGAAAAUGGACCCCUCGACACCCGUGGCCAAUACAAGAACAAACAGCAAGGG
((((((...((((....)))).(((((....(((((((.((.....((((((((.(((....)))...)))))))).......).).)))))))......))))).......)))))). ( -41.00)
>consensus
ACU___________________________UUCACUGGAGCCUUAUCCGAUUUCUUGGUGCCGAAACCAAGAAUAGAACCCUCCACAACCAUAGCCAAAGCUAAAAUUAACAGCAAAGU
...................................(((((...........((((((((......)))))))).......))))).................................. ( -9.51 = -10.15 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:13 2006