Locus 2163

Sequence ID 3R_DroMel_CAF1
Location 6,211,827 – 6,211,924
Length 97
Max. P 0.659277
window3521

overview

Window 1

Location 6,211,827 – 6,211,924
Length 97
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 81.55
Mean single sequence MFE -36.55
Consensus MFE -27.93
Energy contribution -28.48
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.44
Structure conservation index 0.76
SVM decision value 0.26
SVM RNA-class probability 0.659277
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6211827 97 + 27905053
UUUU--------UGUGCCUUUGCACGUGCCCUGC---AAGCA---ACCAACCGGUCGUAUGUGUAACAUCCG-----AACGGGGCGUAUACAUAACGCCGUACAAGGCGACACCAG
....--------(((((((((((...(((...))---).)))---......(((.((((((((((...(((.-----...)))...))))))).))))))...))))).))).... ( -28.70)
>DroSec_CAF1 28575 103 + 1
UUUU--------UGCGCCUUUGCACGUGCCCUGCUGCUACCAACCACCAACCGGGCGUAUGUGUAACAUCCG-----AACGGGGCGUAUACGUAACGCCGUGCAAGGCGACACCAG
....--------((((((((.((((((((......)).)).............((((((((((((...(((.-----...)))...))))))).))))))))))))))).)).... ( -37.00)
>DroSim_CAF1 28983 103 + 1
UUUU--------UGUGCCUUUGCACGUGCCCUGCUGCUAGCAACCACCAACCGGGCGUAUGUGUAACAUCCG-----AACGGGGCGUAUACGUAACGCCGUGCAAGGCGACACCAG
....--------((((((((.(((((((...(((.....)))..)))......((((((((((((...(((.-----...)))...))))))).)))))))))))))).))).... ( -39.10)
>DroEre_CAF1 29349 93 + 1
UUUU--------CGUGCCUGUGCACGUGCCCUCCAGC---CA-------ACCGGGCGUAUGUGUAACAUGCG-----AACGGGGCGUAUACGUAACGCCGUGCAAGGCGCCGCCAG
....--------.((((((.((((((.((......))---).-------.(((..((((((.....))))))-----..)))(((((.......))))))))))))))))...... ( -40.60)
>DroYak_CAF1 26318 97 + 1
UUUU--------UGUGCCUGUGCACGUGCCCUCCAGC---CA---ACCAACCGGGCGUAUGUGUAACAUCCG-----AACGGGGCGUAUACGUAACGCCGUGCAAGGCGACACCAG
....--------(((((((.((((((.((......))---).---........((((((((((((...(((.-----...)))...))))))).)))))))))))))).))).... ( -35.60)
>DroAna_CAF1 35121 110 + 1
UUUUCGAGCCUCUGUGCCUUUUCACGUGCCCUCAACA---GG---GCCCACGGGGCGUAUGUGUAAUAUCCGCUCGAAUCGGGGCGUAUACGUAACGUCGUGCAAUGCGAUGCCCG
..(((((((...(((.......((((((((((....)---))---((((...)))))))))))..)))...))))))).(((((((....)))..((((((.....)))))))))) ( -38.30)
>consensus
UUUU________UGUGCCUUUGCACGUGCCCUCCAGC___CA___ACCAACCGGGCGUAUGUGUAACAUCCG_____AACGGGGCGUAUACGUAACGCCGUGCAAGGCGACACCAG
..............(((((.((((((.((((.....................)))).((((((((...((((.......))))...))))))))....)))))))))))....... (-27.93 = -28.48 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:50 2006