Locus 2183

Sequence ID 2L_DroMel_CAF1
Location 5,901,190 – 5,901,319
Length 129
Max. P 0.917782
window3521 window3522

overview

Window 1

Location 5,901,190 – 5,901,295
Length 105
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 80.04
Mean single sequence MFE -29.10
Consensus MFE -24.85
Energy contribution -26.02
Covariance contribution 1.17
Combinations/Pair 1.13
Mean z-score -1.91
Structure conservation index 0.85
SVM decision value 1.12
SVM RNA-class probability 0.917782
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5901190 105 - 22407834
UUU-GUUUUUUUUUUCAUUUGGUUUUUCAGUUUUCGGGGCCAAGAACUCGGG--GCCAGUUUUUGGCCAC--AGAGCGGCUUUUUGCGUCAUCGAAAUGAUUGGAAGGCA
...-.................(((((((((((((((((((((((((((.(..--..))))))))))))..--.((((((....)))).)).)))))..))))))))))). ( -33.70)
>DroSec_CAF1 91794 101 - 1
U-----UUUUUUUCUCAUUUGGAUUUUCAGUUUUCGGGGCCAAGAACUCGGG--GCCAGUUUUUGGCCAC--AGAGCGGCUUUUUGCGUCAUCGAAAUGAUUGGAAGGCA
.-----((((((..((((((.(((.....(((((...(((((((((((.(..--..))))))))))))..--))))).((.....))...))).))))))..)))))).. ( -31.80)
>DroSim_CAF1 92147 101 - 1
U-----UUUUUUUCUCAUUUGGUUUUUCAGUUUUCGGGGCCAAGAACUCGGG--GCCAGUUUUUGGCCAC--AGAGCGGCUUUUUGCGUCAUCGAAAUGAUUGGAAGGCA
.-----...............(((((((((((((((((((((((((((.(..--..))))))))))))..--.((((((....)))).)).)))))..))))))))))). ( -33.70)
>DroEre_CAF1 116127 91 - 1
U-------GUUUUUUC-----AGUUUUCGGU-UUCGGGGCCAAGAACUCGG---GCCAGUU-UUGGCCAC--AGAGCGGCUUUUUACGUCAUCGAAAUGAUUGGAAGGCU
.-------..((((((-----((((((((((-..(((((((.....(((.(---(((....-..))))..--.))).)))))....))..))))))..)))))))))).. ( -28.10)
>DroWil_CAF1 176624 110 - 1
UUCCAGCUUCUAUUUCGUUUCUGUUUUUUUUUUUUUGGGCCAAGAACUCGCCUUGCCACAUUUUGGCCAUGAAAAACGACUUUUUACGUCAUCUAAAUGAUUAGACUUAA
........((((..((((((..(((((((........((((((((....((...))....))))))))..)))))))(((.......)))....)))))).))))..... ( -21.60)
>DroYak_CAF1 116969 93 - 1
U-------UUUUUUGU-----GAUUUUCGGUUUUCGGGGCCAAGAACUCGG---GCCACUUUUUGGCCAC--AGAGCGGCUUUUUACGUCAUCGAAAUGAUUGGAAGGCA
.-------..((((((-----......(((((((.(....).))))).))(---((((.....)))))))--))))..((((((((.(((((....))))))))))))). ( -25.70)
>consensus
U_____UUUUUUUUUCAUUUGGAUUUUCAGUUUUCGGGGCCAAGAACUCGGG__GCCAGUUUUUGGCCAC__AGAGCGGCUUUUUACGUCAUCGAAAUGAUUGGAAGGCA
.............................(((((...(((((((((((.((....)))))))))))))....))))).((((((((.(((((....))))))))))))). (-24.85 = -26.02 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 5,901,225 – 5,901,319
Length 94
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 76.05
Mean single sequence MFE -21.48
Consensus MFE -15.46
Energy contribution -16.68
Covariance contribution 1.22
Combinations/Pair 1.05
Mean z-score -0.92
Structure conservation index 0.72
SVM decision value 0.11
SVM RNA-class probability 0.588794
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5901225 94 - 22407834
ACUGACAACGCUCAGAUCGGUUUUUUU-GUUUUUUUUUUCAUUUGGUUUUUCAGUUUUCGGGGCCAAGAACUCGGG--GCCAGUUUUUGGCCAC--AGA
.((((.(((....(((((((.......-..............)))))))....))).))))(((((((((((.(..--..))))))))))))..--... ( -25.10)
>DroSec_CAF1 91829 88 - 1
ACUGACAACGCUCAGAUCGGUU--U-----UUUUUUUCUCAUUUGGAUUUUCAGUUUUCGGGGCCAAGAACUCGGG--GCCAGUUUUUGGCCAC--AGA
.((((.(((....(((((.(..--.-----.............).)))))...))).))))(((((((((((.(..--..))))))))))))..--... ( -24.69)
>DroSim_CAF1 92182 90 - 1
ACUGACAACGCUCAGAUCGGCUUUU-----UUUUUUUCUCAUUUGGUUUUUCAGUUUUCGGGGCCAAGAACUCGGG--GCCAGUUUUUGGCCAC--AGA
.((((.((((((......)))....-----.............(((....)))))).))))(((((((((((.(..--..))))))))))))..--... ( -25.10)
>DroEre_CAF1 116162 80 - 1
ACUGACAACGCUCAGAUCGGUUGUU-------GUUUUUUC-----AGUUUUCGGU-UUCGGGGCCAAGAACUCGG---GCCAGUU-UUGGCCAC--AGA
.(((((((((..(.....)..))))-------))......-----((((((.(((-(....)))).))))))..(---(((....-..)))).)--)). ( -22.30)
>DroWil_CAF1 176659 99 - 1
GCUCACAAACCACGCAUUUGUUUUUUCCAGCUUCUAUUUCGUUUCUGUUUUUUUUUUUUUGGGCCAAGAACUCGCCUUGCCACAUUUUGGCCAUGAAAA
(((...(((..(((....)))..)))..)))......................(((((...((((((((....((...))....))))))))..))))) ( -12.60)
>DroYak_CAF1 117004 82 - 1
ACUAACAACGCUCAGAUCGCGUUUU-------UUUUUUGU-----GAUUUUCGGUUUUCGGGGCCAAGAACUCGG---GCCACUUUUUGGCCAC--AGA
.........(((.((((((((....-------.....)))-----)))))..)))...((((........))))(---((((.....)))))..--... ( -19.10)
>consensus
ACUGACAACGCUCAGAUCGGUUUUU_____UUUUUUUUUCAUUUGGAUUUUCAGUUUUCGGGGCCAAGAACUCGGG__GCCAGUUUUUGGCCAC__AGA
.((((.(((............................................))).))))(((((((((((.((....)))))))))))))....... (-15.46 = -16.68 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:40 2006