Locus 4471

Sequence ID 2R_DroMel_CAF1
Location 14,696,536 – 14,696,628
Length 92
Max. P 0.975598
window7152 window7153

overview

Window 2

Location 14,696,536 – 14,696,628
Length 92
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 87.39
Mean single sequence MFE -19.45
Consensus MFE -16.84
Energy contribution -16.90
Covariance contribution 0.06
Combinations/Pair 1.11
Mean z-score -2.34
Structure conservation index 0.87
SVM decision value 1.75
SVM RNA-class probability 0.975598
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14696536 92 + 20766785
AUGCAAUUUACACUCUUUCGUU--------CCCCCUGCUUUUUACUUCGGUUUUUUUUUUAUUUAUUUUCACACCGAGGUAUUUGGUUGUCAAGGGAAUU
...................(((--------(((...(((...(((((((((.....................)))))))))...)))......)))))). ( -19.20)
>DroSec_CAF1 1980 100 + 1
AUGCCAUUUACACUCUUUCGUUCUGUAGCUCCCCCGGCUUUUUACUUCGGUUUUUUUUUUAUUUAUUUUCACAUCGAGGUAUUUGGUUGUCAAGGGAAUU
..((.((..((........))...)).))((((.(((((...(((((((((.....................)))))))))...)))))....))))... ( -18.00)
>DroEre_CAF1 1921 95 + 1
AUUCAAUUUCCACUCUUUCGUGCUGUAGCUCCCCCGACUUUUUACUUCGGUUU-----UUAUUUAUUUUCACAUCGAGGUAUUUGGUUGCCAGGGGAAUU
..........(((......))).......((((((((((...(((((((((..-----..............)))))))))...)))))...)))))... ( -22.49)
>DroYak_CAF1 1987 95 + 1
AUUCCAUUUCCACUCUUUCGUUCUGUAGCUCCCCCGACUUUUUACUUCGGUUU-----UUAUUUAUUUUCACAUCGAGGUAUUUGGUUGUCAAGGGAAUU
.............................((((.(((((...(((((((((..-----..............)))))))))...)))))....))))... ( -18.09)
>consensus
AUGCAAUUUACACUCUUUCGUUCUGUAGCUCCCCCGACUUUUUACUUCGGUUU_____UUAUUUAUUUUCACAUCGAGGUAUUUGGUUGUCAAGGGAAUU
.............................((((.(((((...(((((((((.....................)))))))))...)))))....))))... (-16.84 = -16.90 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,696,536 – 14,696,628
Length 92
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 87.39
Mean single sequence MFE -17.78
Consensus MFE -12.41
Energy contribution -13.41
Covariance contribution 1.00
Combinations/Pair 1.12
Mean z-score -2.08
Structure conservation index 0.70
SVM decision value 0.56
SVM RNA-class probability 0.782216
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14696536 92 - 20766785
AAUUCCCUUGACAACCAAAUACCUCGGUGUGAAAAUAAAUAAAAAAAAAACCGAAGUAAAAAGCAGGGGG--------AACGAAAGAGUGUAAAUUGCAU
..((((((((.........(((.(((((.....................))))).))).....)))))))--------).(....).((((.....)))) ( -19.04)
>DroSec_CAF1 1980 100 - 1
AAUUCCCUUGACAACCAAAUACCUCGAUGUGAAAAUAAAUAAAAAAAAAACCGAAGUAAAAAGCCGGGGGAGCUACAGAACGAAAGAGUGUAAAUGGCAU
...(((((((.........(((.(((.........................))).)))......)))))))((((....((......)).....)))).. ( -13.77)
>DroEre_CAF1 1921 95 - 1
AAUUCCCCUGGCAACCAAAUACCUCGAUGUGAAAAUAAAUAA-----AAACCGAAGUAAAAAGUCGGGGGAGCUACAGCACGAAAGAGUGGAAAUUGAAU
..((((((((((.......(((.(((................-----....))).)))....))))))))))((((....(....).))))......... ( -20.25)
>DroYak_CAF1 1987 95 - 1
AAUUCCCUUGACAACCAAAUACCUCGAUGUGAAAAUAAAUAA-----AAACCGAAGUAAAAAGUCGGGGGAGCUACAGAACGAAAGAGUGGAAAUGGAAU
..((((((((((.......(((.(((................-----....))).)))....))))))))))((((....(....).))))......... ( -18.05)
>consensus
AAUUCCCUUGACAACCAAAUACCUCGAUGUGAAAAUAAAUAA_____AAACCGAAGUAAAAAGCCGGGGGAGCUACAGAACGAAAGAGUGGAAAUGGAAU
..((((((((((.......(((.(((.........................))).)))....))))))))))........(....).............. (-12.41 = -13.41 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:35 2006