Locus 7488

Sequence ID X_DroMel_CAF1
Location 18,677,486 – 18,677,579
Length 93
Max. P 0.991523
window12282 window12283

overview

Window 2

Location 18,677,486 – 18,677,579
Length 93
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 72.43
Mean single sequence MFE -27.62
Consensus MFE -13.25
Energy contribution -13.38
Covariance contribution 0.12
Combinations/Pair 1.12
Mean z-score -2.76
Structure conservation index 0.48
SVM decision value 2.27
SVM RNA-class probability 0.991523
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18677486 93 + 22224390
-AACUUGGUAUUAGCGCCAUCUGGCGCUCUCAGCUGUUGCCUAUCGAUAGGC----AACAACCCUAU--------------UACCAACAGCCGCCGAUAUAGGCUAUCGGUA
-...((((((..((((((....))))))......(((((((((....)))))----)))).......--------------)))))).....(((((((.....))))))). ( -36.90)
>DroSim_CAF1 3005 93 + 1
-AACUUGCUACUAGCGCCAUCUACCGCUCCCAGCUGUUGUCUAUCGAUAGGC----AACAACCUUAU--------------UAUCAAUAGCCGCCGAUAUACGCUAUCGGUA
-.....(((...((((........))))...)))(((((((((....)))))----)))).......--------------...........(((((((.....))))))). ( -24.30)
>DroEre_CAF1 4707 111 + 1
CAACUUCGUACUAGCGCCAUCUAUCGCCC-CAGUUGGUGUAUGUCGAUAGACAUCCAACAACCCUGUUUCACACACAUUCUUACCCACUGCCGCCGAUAGGAGCUAUCGGUA
.....(((...((((....((((((((..-((((.((((.(((((....)))))..((((....)))).............)))).))))..).))))))).)))).))).. ( -26.20)
>DroYak_CAF1 2713 112 + 1
CUACUUGCCACUAGCGCCAUCUAUCGCCCGCGACUAGUGUAUAUCGAUAGACAUCCAACAACCCUGUUUCCUCAACAUUCUGACCCACAGCCGCCGAUAAAAGCUAUCGGUA
........(((((((((............))).))))))..(((((((((.............((((....(((......)))...)))).............))))))))) ( -23.07)
>consensus
_AACUUGCUACUAGCGCCAUCUAUCGCCC_CAGCUGGUGUAUAUCGAUAGAC____AACAACCCUAU______________UACCAACAGCCGCCGAUAUAAGCUAUCGGUA
.............(((........)))......((((((.....))))))..........................................(((((((.....))))))). (-13.25 = -13.38 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 18,677,486 – 18,677,579
Length 93
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 72.43
Mean single sequence MFE -35.70
Consensus MFE -18.35
Energy contribution -20.85
Covariance contribution 2.50
Combinations/Pair 1.29
Mean z-score -2.49
Structure conservation index 0.51
SVM decision value 2.10
SVM RNA-class probability 0.988031
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18677486 93 - 22224390
UACCGAUAGCCUAUAUCGGCGGCUGUUGGUA--------------AUAGGGUUGUU----GCCUAUCGAUAGGCAACAGCUGAGAGCGCCAGAUGGCGCUAAUACCAAGUU-
(((((((((((.........)))))))))))--------------...((((((((----(((((....)))))))))))....((((((....))))))....)).....- ( -46.20)
>DroSim_CAF1 3005 93 - 1
UACCGAUAGCGUAUAUCGGCGGCUAUUGAUA--------------AUAAGGUUGUU----GCCUAUCGAUAGACAACAGCUGGGAGCGGUAGAUGGCGCUAGUAGCAAGUU-
..((((((.....)))))).(.((((((((.--------------...((((....----)))))))))))).)....((((..((((.(....).))))..)))).....- ( -28.90)
>DroEre_CAF1 4707 111 - 1
UACCGAUAGCUCCUAUCGGCGGCAGUGGGUAAGAAUGUGUGUGAAACAGGGUUGUUGGAUGUCUAUCGACAUACACCAACUG-GGGCGAUAGAUGGCGCUAGUACGAAGUUG
..((((((((((.((((.((....)).))))......(((.....)))))))))))))(((((....)))))......((((-(.((........)).)))))......... ( -31.60)
>DroYak_CAF1 2713 112 - 1
UACCGAUAGCUUUUAUCGGCGGCUGUGGGUCAGAAUGUUGAGGAAACAGGGUUGUUGGAUGUCUAUCGAUAUACACUAGUCGCGGGCGAUAGAUGGCGCUAGUGGCAAGUAG
..(((((((((((..((((((.(((.....)))..))))))(....))))))))))))(((((....)))))..(((.(((((.((((........)))).))))).))).. ( -36.10)
>consensus
UACCGAUAGCUUAUAUCGGCGGCUGUGGGUA______________ACAGGGUUGUU____GCCUAUCGAUAGACAACAGCUG_GAGCGAUAGAUGGCGCUAGUACCAAGUU_
(((((((((((.........)))))))))))..................((((((((.(((((....))))).))))))))...((((........))))............ (-18.35 = -20.85 +   2.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:10 2006