struct-multiline.mlocarna

mLocARNA --- multiple Local (and global) Alignment of RNA --- LocARNA 1.9.0
Copyright Sebastian Will

Compute pair probs ...
Compute pairwise alignments ... 
Perform progressive alignment ...



AARQ02000011.1/391-585   -AAUUGAAUAGAAGCGCCAGAACUGAUUGGGACGAAAAUGCUUG-AAGGUGAAAUCCCUGAAAAGUA-UCGAUCAGUUGACGAGGAGGAGAUUAAUCGAAGUUUCGGCGGGAGUCUCCCG
CP006940.1:755039-755234 CAAUUGAAUAGAAGCGCCAGAACUGAUUGGGACGAAAAUGCUUG-AAGGUGAAAUCCCUGAAAAGUA-UCGAUCAGUUGACGAGGAGGAGAUUAAUCGAAGUUUCGGCGGGAGUCUCCCG
AM263198.1:720654-720850 CAAUUAAAUAGAAGCGCCAGAACUGAUUGGGACGAAAAUACUUG-AAGGUGAAAUUCCUGAAAAGUA-ACGGUCAGUUGACGAGGAGGAGAUUAAUCGAAAGUUCGGCGGGAGUCUCCCG
AL596166.1:50733-50929   CAACUGAAUAGAAGCGCCAGAACUGAUUGGGACGAAAAUGCUUA-AAGGUGAAAUUCCUGGAAAGUAAACAAUCAGUUGACGAGGAGGAGAUUAAUCGAAAUUUCGGCGGGAGUCUCCCG
FN557490.1:674363-674560 UAACUGAAUAGAAGCGCCAGAACUGGUUGGAUCGAAAUUACUUCCAAGGUGAAAUUCCCAAGAAGUAAGCAAUCAGUUGACGAGGAGGAGAUUAAUCGAAGUUUCGGCGGGAGUCUCCCG
FR687253.1:714343-714539 CAACUGAAUAGAAGCGCCAGAACUGAUCGGAUCGAAAUUACUUUCUAGGUGAAAUUCCU-AAAAGUAACGGGUCAGUUGACGAGGAGGAGAUUAAUCGAAGUUUCGGCGGGAGUCUCCCG

AARQ02000011.1/391-585   GCUGU-GCAUGCAGUCGUUAAGUCUUACUUACAAAUCAUUUGGGUGACCAAGUGGACAGAGUAGUAAUGAAACAUGCUU
CP006940.1:755039-755234 GCUGU-GCAUGCAGUCGUUAAGUCUUACUUACAAAUCAUUUGGGUGACCAAGUGGACAGAGUAGUAAUGAAAUAUGCUU
AM263198.1:720654-720850 GCUGUAGCAUGCAGUCGUUAAGUCUUACUUACAAAACAUUUGGGUGACCAAAUGGACAGAGUAGUAAUGAAAUAUGUGU
AL596166.1:50733-50929   GCUGU-GCAUGCAGUCGUUAAGUCUUACUUACAAAUCAUUUGGGUGACCAAGUGGACAGAGUAGUAAUGAAACAUGUGC
FN557490.1:674363-674560 GCUGU-GCAUGCAGUCGUUAAGUCUUACUUACAAAUCACUUGGGCGACCAGGUGGACAGAGUAGUAAAGAAACAUGCGU
FR687253.1:714343-714539 GCUGU-GCAUGCAGUCGUUAAGUCUUACUUACAAAUCAUUUGGGUGACCAAGUGGACAGAGUAGUAAUGAAACAUGCGC

alifold                  .............(((((..((((((((((........(((((...(((.......)))...))))).))))))))))......(.(((((((..((((....))))....)))))))))
                         )).)).(((((...((((((....((((((.....((((((((....))))))))...))))))))))))..))))).. (-68.86 = -47.45 + -21.41)