Locus 10114

Sequence ID 3R_DroMel_CAF1
Location 27,118,808 – 27,118,901
Length 93
Max. P 0.931738
window16097 window16098

overview

Window 7

Location 27,118,808 – 27,118,901
Length 93
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 63.59
Mean single sequence MFE -23.32
Consensus MFE -10.31
Energy contribution -11.50
Covariance contribution 1.19
Combinations/Pair 1.12
Mean z-score -1.86
Structure conservation index 0.44
SVM decision value 0.52
SVM RNA-class probability 0.769130
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27118808 93 + 27905053
UUUCCACAUAGGCGACAUAUACAUACAU--AUGUACAUAUUGGCAAGUGGCCAAAGUGAACCGCAGUGGAAGUUGUUGGCGAUGGAAGGGGCAAA
.((((((....(((((((((......))--)))).(((.(((((.....))))).)))...))).))))))((((....))))............ ( -25.20)
>DroSec_CAF1 20831 85 + 1
UUUCCACAUAGGCGACACAUACAAAC----------AUAUUGGCAAGUGGCCAAAGUGAGCCGCAGUGGAAGUUGUUGGCGGUGGAAGGGGCAAA
(((((((...(.((((((.......(----------((.(((((.....))))).)))..((.....))..).))))).).)))))))....... ( -25.10)
>DroSim_CAF1 22525 77 + 1
UUUCCACAUAGGCGACAC------------------AUAUUGGCAAGUGGCCAAAGUGGGCCGCAGUGGAAGUUGUUGGCGGUGGAAGGGGCAAA
(((((((...(.(((((.------------------((.((.((..((((((......)))))).)).)).))))))).).)))))))....... ( -28.90)
>DroWil_CAF1 30539 74 + 1
AUUUCAUAUUUGCU---UGU----UUUUCUGUCAUCAUAUUGGCAAGUGUCCAA-GUGAGCCAAAAAUGAAGA-------------AACACUGGA
.((((((.((((((---..(----((..((((((......)))).)).....))-)..)).)))).)))))).-------------......... ( -14.10)
>consensus
UUUCCACAUAGGCGACACAU____AC__________AUAUUGGCAAGUGGCCAAAGUGAGCCGCAGUGGAAGUUGUUGGCGGUGGAAGGGGCAAA
.((((((...(((......................(((.(((((.....))))).))).)))...))))))........................ (-10.31 = -11.50 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 27,118,808 – 27,118,901
Length 93
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 63.59
Mean single sequence MFE -20.46
Consensus MFE -8.46
Energy contribution -10.15
Covariance contribution 1.69
Combinations/Pair 1.12
Mean z-score -2.43
Structure conservation index 0.41
SVM decision value 1.22
SVM RNA-class probability 0.931738
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27118808 93 - 27905053
UUUGCCCCUUCCAUCGCCAACAACUUCCACUGCGGUUCACUUUGGCCACUUGCCAAUAUGUACAU--AUGUAUGUAUAUGUCGCCUAUGUGGAAA
........................((((((.((((......(((((.....)))))(((((((((--....)))))))))))))....)))))). ( -23.40)
>DroSec_CAF1 20831 85 - 1
UUUGCCCCUUCCACCGCCAACAACUUCCACUGCGGCUCACUUUGGCCACUUGCCAAUAU----------GUUUGUAUGUGUCGCCUAUGUGGAAA
........................((((((.(((((.((..(((((.....)))))(((----------....))))).)))))....)))))). ( -20.00)
>DroSim_CAF1 22525 77 - 1
UUUGCCCCUUCCACCGCCAACAACUUCCACUGCGGCCCACUUUGGCCACUUGCCAAUAU------------------GUGUCGCCUAUGUGGAAA
........................((((((.(((((.((..(((((.....)))))..)------------------).)))))....)))))). ( -23.60)
>DroWil_CAF1 30539 74 - 1
UCCAGUGUU-------------UCUUCAUUUUUGGCUCAC-UUGGACACUUGCCAAUAUGAUGACAGAAAA----ACA---AGCAAAUAUGAAAU
....((.((-------------((((((((.(((((....-..........)))))...))))).))))).----)).---.............. ( -14.84)
>consensus
UUUGCCCCUUCCACCGCCAACAACUUCCACUGCGGCUCACUUUGGCCACUUGCCAAUAU__________GU____AUAUGUCGCCUAUGUGGAAA
........................((((((...(((.(((.(((((.....))))).....................)))..)))...)))))). ( -8.46 = -10.15 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:09 2006