Locus 6562

Sequence ID 2R_DroMel_CAF1
Location 20,520,773 – 20,520,885
Length 112
Max. P 0.643539
window10447

overview

Window 7

Location 20,520,773 – 20,520,885
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.87
Mean single sequence MFE -40.57
Consensus MFE -28.01
Energy contribution -29.70
Covariance contribution 1.69
Combinations/Pair 1.17
Mean z-score -1.64
Structure conservation index 0.69
SVM decision value 0.23
SVM RNA-class probability 0.643539
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20520773 112 + 20766785
AAUGGGGGCCGUGGAACUUUGCAUUUACGACUCGGC--------AGAGCUGUAAGUGCUUCCGGGCUGCCCCCCGAGGGCAAGAAUCGAUUUUCGAUGUUAAUCGAGUUGAAAACCCUGC
...(((((((.(((((....(((((((((.(((...--------.))).)))))))))))))))))(((((.....)))))....(((((..(((((....))))))))))...)))).. ( -44.60)
>DroSec_CAF1 22492 111 + 1
AAUGGCGGCCGUGGAACUUCGCAUUUACGACUCGGC--------AGAGCUUUAAGUGCUUCCUGGCU-CCCCCCGAGGGCAAGAAUCGAUUUUCGAUGUUAAUCGAGUUGAAAACCCCGC
...((.(((((.((((....(((((((...(((...--------.)))...))))))))))))))))-.))..((.(((......(((((..(((((....))))))))))...))))). ( -33.50)
>DroSim_CAF1 22436 111 + 1
AAUGGGGGCCGUGGAACUUCGCAUUUACGACUCGGC--------AGAGCUGUAAGUGCUUCCGGGCU-CCCCCCGAGGGCAAGAAUCGAUUUUCGAUGUUAAUCGAGUUGAAAACCCCGC
...(((((((.(((((....(((((((((.(((...--------.))).))))))))))))))))))-)))..((.(((......(((((..(((((....))))))))))...))))). ( -44.60)
>DroEre_CAF1 22708 111 + 1
AAUGGGGGCCGUGGAACAUCGCAUUUACGACUCGGC--------UGGGCUGUAAGUGCUUCCGGGCU-CCCCCCGAGGGCAAGAAUCGAUUUUCGAUGUUAAUCGAGUUGAAAACCCCGC
...(((((((.(((((....(((((((((.(((...--------.))).))))))))))))))))))-)))..((.(((......(((((..(((((....))))))))))...))))). ( -42.60)
>DroYak_CAF1 22725 111 + 1
AAUGGGGACCGUGGUACAUCGCAUUUACGACUCGGC--------AGAGCUGUAAGUGCUUCCGGGCU-CCCCCCGAGGGCAUGAAUCGAUUUUCGAUGUUAAUCGAGUUGAACACCCCGC
...((((...((((....)))).....((((((((.--------..(((.....(((((..((((..-...))))..)))))..((((.....)))))))..))))))))....)))).. ( -40.20)
>DroAna_CAF1 21695 100 + 1
C--CGGGCUUGGGGAGUUCU---GUUGUGGCUCCGCCGGCCUCCGGAGUUGGAUGUGCUUCCGGG---------------GGGAAUCGAUUUUCGAUGUUAAUCGAGUUGAAUACCCUGC
.--.(((((.(.((((((..---.....)))))).).)))))(((((((.......)).)))))(---------------(((..(((((..(((((....))))))))))...)))).. ( -37.90)
>consensus
AAUGGGGGCCGUGGAACUUCGCAUUUACGACUCGGC________AGAGCUGUAAGUGCUUCCGGGCU_CCCCCCGAGGGCAAGAAUCGAUUUUCGAUGUUAAUCGAGUUGAAAACCCCGC
...(((((((.(((((....((((((((..(((............)))..))))))))))))))))...(((....)))......(((((..(((((....))))))))))...)))).. (-28.01 = -29.70 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:53 2006