Locus 6348

Sequence ID 3R_DroMel_CAF1
Location 16,617,200 – 16,617,299
Length 99
Max. P 0.983848
window10354

overview

Window 4

Location 16,617,200 – 16,617,299
Length 99
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 74.31
Mean single sequence MFE -27.90
Consensus MFE -12.31
Energy contribution -12.28
Covariance contribution -0.03
Combinations/Pair 1.33
Mean z-score -2.58
Structure conservation index 0.44
SVM decision value 1.96
SVM RNA-class probability 0.983848
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16617200 99 + 27905053
CCCGUUUAUCUCAUUCCG-CGAGUGCGUGCGACGGUGCGUA------AGUUGCCAAUUUUUCGUAUUUCUCGUAUUUCGCACAUUCUCGCGACCCAUUUUUUACCA
................((-((((...((((((.((((((..------((.(((.........))).))..))))))))))))...))))))............... ( -26.10)
>DroPse_CAF1 176836 81 + 1
------UCUCUUUUUCGGCCGGGUGCGUGAGGCGAUGCGUAA-----AGCUGCGAAAU---------U--UCUGUUUCGCGAAUUCUCGCGACCCAUUUC---CAA
------..........((..((((.(((((((....((....-----.))((((((((---------.--...))))))))...)))))))))))....)---).. ( -27.20)
>DroSec_CAF1 173626 88 + 1
CCCAUUUAUCUCAUUCCG-CGAGUGCGUGCGACGGUGCGUA------AGUUGCCAAUU-----------UCGUAUUUCGCACAUUCUCGCGACCCAUUUUUUUCGA
................((-((((...((((((.((((((.(------(((.....)))-----------)))))))))))))...))))))............... ( -26.10)
>DroEre_CAF1 177059 88 + 1
CCCAUUCAUCUCAUUCCG-CGAGUGCGUGCGACGAUGCGUG------AGUUGCGAAUU---------UCUCGUAUUUCGCACAAGCUCGCGACCCAUUUU--UGCA
................((-(((((..((((((.((((((.(------((........)---------)).))))))))))))..))))))).........--.... ( -31.70)
>DroYak_CAF1 175641 95 + 1
CCCAUUUAUCUCAUUCCG-CGAGUGCGUGCGACGGUGCGUAAGUGUAAGUUGCGAAUU---------UCUCGUAUUUCGCACACUCUCGCGACCCAUUUUU-UCCA
................((-((((.(.((((((..(..(....)..)....(((((...---------..)))))..)))))).).))))))..........-.... ( -29.10)
>DroPer_CAF1 182817 81 + 1
------UCUCUUUUUCGGCCGGGUGCGUGAGGCGAUGCGUAA-----AGCUGCGAAAU---------U--UCUGUUUCGCGAAUUCUCGCGACCCAUUUC---CAA
------..........((..((((.(((((((....((....-----.))((((((((---------.--...))))))))...)))))))))))....)---).. ( -27.20)
>consensus
CCCAUUUAUCUCAUUCCG_CGAGUGCGUGCGACGAUGCGUA______AGUUGCGAAUU_________U_UCGUAUUUCGCACAUUCUCGCGACCCAUUUU__UCCA
................((.((((...((((((.((((((...............................))))))))))))...))))))............... (-12.31 = -12.28 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:19 2006