Locus 1821

Sequence ID 2R_DroMel_CAF1
Location 6,809,527 – 6,809,618
Length 91
Max. P 0.968131
window3023 window3024

overview

Window 3

Location 6,809,527 – 6,809,618
Length 91
Sequences 3
Columns 94
Reading direction forward
Mean pairwise identity 82.80
Mean single sequence MFE -17.63
Consensus MFE -13.60
Energy contribution -14.93
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.77
SVM decision value 0.31
SVM RNA-class probability 0.683347
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6809527 91 + 20766785
AUCAAUAAUUAUAGUUACUUUUCUUGAUAUUUGUUAGGAGAAAAGUGUUUUUGGCACCUUGUGUACCAUAACGAAUAUAUUCUU---AUCUUGU
..........................((((((((((((...((.((((.....)))).)).....)).))))))))))......---....... ( -12.40)
>DroSec_CAF1 15808 83 + 1
UUCAAUAAUUAUAGUUA-UUUUCUUGUAAUUUGUUAGGAGAAAAGUGUUUUUGGCACCUUGCGUGCCAUACCAAAUAUAUUCUU----------
.................-(((((((.(((....))).)))))))((((((.((((((.....))))))....))))))......---------- ( -17.20)
>DroSim_CAF1 16274 92 + 1
UUCAAUAAUU--AGUUACUUUUCUUUUAAUUUGUUAGGAGAAAAGUGUUUUUGGCACCUUGUGUGCCAUACAAAACAUAUUCUUGUUACCUGGU
.......(((--((..(((((((((((((....)))))))))))))(((((((((((.....))))))...))))).............))))) ( -23.30)
>consensus
UUCAAUAAUUAUAGUUACUUUUCUUGUAAUUUGUUAGGAGAAAAGUGUUUUUGGCACCUUGUGUGCCAUACCAAAUAUAUUCUU___A_CU_GU
...............((((((((((.(((....))).))))))))))....((((((.....)))))).......................... (-13.60 = -14.93 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 6,809,527 – 6,809,618
Length 91
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 82.80
Mean single sequence MFE -16.21
Consensus MFE -12.81
Energy contribution -13.37
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -2.61
Structure conservation index 0.79
SVM decision value 1.62
SVM RNA-class probability 0.968131
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6809527 91 - 20766785
ACAAGAU---AAGAAUAUAUUCGUUAUGGUACACAAGGUGCCAAAAACACUUUUCUCCUAACAAAUAUCAAGAAAAGUAACUAUAAUUAUUGAU
....(((---((..(((.....(((.((((((.....))))))..)))((((((((..............))))))))...)))..)))))... ( -15.04)
>DroSec_CAF1 15808 83 - 1
----------AAGAAUAUAUUUGGUAUGGCACGCAAGGUGCCAAAAACACUUUUCUCCUAACAAAUUACAAGAAAA-UAACUAUAAUUAUUGAA
----------...((((....((((.((((((.....)))))).......((((((..(((....)))..))))))-..))))....))))... ( -14.60)
>DroSim_CAF1 16274 92 - 1
ACCAGGUAACAAGAAUAUGUUUUGUAUGGCACACAAGGUGCCAAAAACACUUUUCUCCUAACAAAUUAAAAGAAAAGUAACU--AAUUAUUGAA
....(((((..((.....(((((...((((((.....)))))))))))((((((((..(((....)))..))))))))..))--..)))))... ( -19.00)
>consensus
AC_AG_U___AAGAAUAUAUUUGGUAUGGCACACAAGGUGCCAAAAACACUUUUCUCCUAACAAAUUACAAGAAAAGUAACUAUAAUUAUUGAA
....................((((((((((((.....)))))).....((((((((..............)))))))).........)))))). (-12.81 = -13.37 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:58 2006