Locus 2005

Sequence ID X_DroMel_CAF1
Location 5,507,224 – 5,507,320
Length 96
Max. P 0.623729
window3262

overview

Window 2

Location 5,507,224 – 5,507,320
Length 96
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 75.07
Mean single sequence MFE -30.25
Consensus MFE -19.30
Energy contribution -19.63
Covariance contribution 0.33
Combinations/Pair 1.26
Mean z-score -1.24
Structure conservation index 0.64
SVM decision value 0.18
SVM RNA-class probability 0.623729
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5507224 96 - 22224390
AACAA--AAGGGGAAGCCC---CGUGUGCGAGCGAGAUGGACAGCUCGCCGGAUCUGUCGCUCAAAUUGCGACGCGGUUCCAGCGAUUCGCGGGAUAACUU
.....--..........((---((((.((((((..........)))))))(((((.(((((.......)))))((.......))))))))))))....... ( -34.50)
>DroPse_CAF1 37413 87 - 1
AACCA--AAGAG------------AGAGUGAGAGAUAUGGAUAGCUCGCCGGAUCUGUCGCUGAAGCUGCGACGUGGGUCCAGUGAUUCGCGGGACAAUUU
..(((--.(((.------------.(.(((((..((....))..))))))...)))(((((.......))))).)))((((.(((...))).))))..... ( -27.20)
>DroWil_CAF1 65460 96 - 1
AAACUUCAUCAG--AUUCA---AGUGAGAGAACAAAAUGGACAGCUCACCGGAUUUAUCGCUGAAAUUGCGACGCGGUUCCAGCGAUUCCCGUGAUAAUUU
.......((((.--.....---.(((((....(.....).....)))))(((....(((((((.((((((...)))))).)))))))..)))))))..... ( -25.20)
>DroYak_CAF1 33633 96 - 1
AACAA--AAGGAGAAGUCC---CGUGUGCGAGCAAGAUGGACAGCUCGCCGGAUCUGUCGCUCAAAUUGCGACGCGGUUCCAGCGAUUCGCGUGAUAACUU
.....--...(((..(((.---((((.((((((..........)))))))(((((.(((((.......)))))((.......)))))))))).)))..))) ( -30.30)
>DroAna_CAF1 34638 99 - 1
AGCGG--AAGCGGAAGCGAGAGUGAGAGCGAGCAAGAUGGACAGCUCGCCGGAUCUGUCGCUGAAACUGCGACGCGGGAGCAGCGAUUCCCGCGACAACUU
.....--..((((.(((((.((...(.((((((..........)))))))....)).)))))....))))..((((((((......))))))))....... ( -40.10)
>DroPer_CAF1 35171 87 - 1
AACUA--AAGAG------------AGAGUGAGAGAUAUGGAUAGCUCGCCGGAUCUGUCGCUGAAGCUGCGACGUGGCUCCAGUGAUUCACGGGACAAUUU
.....--.....------------...((((.((((.(((........))).))))(((((((.(((..(...)..))).))))))))))).......... ( -24.20)
>consensus
AACAA__AAGAG__AG_C_____GAGAGCGAGCAAGAUGGACAGCUCGCCGGAUCUGUCGCUGAAACUGCGACGCGGUUCCAGCGAUUCGCGGGACAACUU
...........................((((((..........))))))((((...(((((((.((((((...)))))).))))))))).))......... (-19.30 = -19.63 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:57 2006