Locus 786

Sequence ID 2R_DroMel_CAF1
Location 3,748,938 – 3,749,054
Length 116
Max. P 0.530753
window1379 window1380

overview

Window 9

Location 3,748,938 – 3,749,054
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 83.71
Mean single sequence MFE -32.51
Consensus MFE -19.86
Energy contribution -20.30
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.16
Structure conservation index 0.61
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3748938 116 + 20766785
----UGUGAGAGAGAAGCGAAAGUCGAGUUCUCAGCGUCACAAUAACAACACCCACGCGACAGAAGCAUCUUUAGUUCUCAGCGAGAGAGAUAAGCUCAGCUUCCUCUUCUUCUUUCUCU
----...((((((((((.((..(((((....)).((((................))))))).(((((..(((...(((((.....)))))..)))....))))).))..)))))))))). ( -31.69)
>DroSim_CAF1 12915 116 + 1
----UGUGAGAGAGAAGCGAAAGUCGCGUUCUCAGCGUCACAAUAACAACACCCACGCGACAGAAGCAUCUUUAGUUCUCAGCGAGAGAGAUAAGCUCAGCUUCCUCUUCUUCUUUCUCU
----...((((((((((.((..(((((((.......((.......)).......))))))).(((((..(((...(((((.....)))))..)))....))))).))..)))))))))). ( -34.64)
>DroYak_CAF1 11503 103 + 1
AGAGUCUGAGAGAGAUGCGAAAGUCGCGUUCUCAGCGUCACAAUAACAACACCCUCUCGAAAGAAGCAUCUUUAGUUCUCGGCGAGAGAAAUAAGCUCAGCUU-----------------
.(((.(((((((((((((....((.((((.....)))).))...............((....)).))))))))..(((((.....))))).....))))))))----------------- ( -31.20)
>consensus
____UGUGAGAGAGAAGCGAAAGUCGCGUUCUCAGCGUCACAAUAACAACACCCACGCGACAGAAGCAUCUUUAGUUCUCAGCGAGAGAGAUAAGCUCAGCUUCCUCUUCUUCUUUCUCU
......((((((....((....))....))))))(((..................)))....(((((..(((...(((((.....)))))..)))....)))))................ (-19.86 = -20.30 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 3,748,938 – 3,749,054
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 83.71
Mean single sequence MFE -36.57
Consensus MFE -22.47
Energy contribution -24.47
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.61
SVM decision value -0.01
SVM RNA-class probability 0.530753
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3748938 116 - 20766785
AGAGAAAGAAGAAGAGGAAGCUGAGCUUAUCUCUCUCGCUGAGAACUAAAGAUGCUUCUGUCGCGUGGGUGUUGUUAUUGUGACGCUGAGAACUCGACUUUCGCUUCUCUCUCACA----
.((((.(((((..((((((((....(((...((((.....))))....)))..))))))((((.((.(((((..(....)..)))))....)).)))).))..))))).))))...---- ( -36.60)
>DroSim_CAF1 12915 116 - 1
AGAGAAAGAAGAAGAGGAAGCUGAGCUUAUCUCUCUCGCUGAGAACUAAAGAUGCUUCUGUCGCGUGGGUGUUGUUAUUGUGACGCUGAGAACGCGACUUUCGCUUCUCUCUCACA----
.((((.(((((..((((((((....(((...((((.....))))....)))..))))))(((((((.(((((..(....)..)))))....))))))).))..))))).))))...---- ( -42.40)
>DroYak_CAF1 11503 103 - 1
-----------------AAGCUGAGCUUAUUUCUCUCGCCGAGAACUAAAGAUGCUUCUUUCGAGAGGGUGUUGUUAUUGUGACGCUGAGAACGCGACUUUCGCAUCUCUCUCAGACUCU
-----------------.(((((((.......((((((..((((((.......).))))).))))))(((((..(....)..)))))((((..(((.....))).)))).))))).)).. ( -30.70)
>consensus
AGAGAAAGAAGAAGAGGAAGCUGAGCUUAUCUCUCUCGCUGAGAACUAAAGAUGCUUCUGUCGCGUGGGUGUUGUUAUUGUGACGCUGAGAACGCGACUUUCGCUUCUCUCUCACA____
...............((((((....(((...((((.....))))....)))..)))))).....((((((((..(....)..)))))(((((.(((.....))))))))...)))..... (-22.47 = -24.47 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:22 2006