########################################
# Program: needle
# Rundate: Sun 11 Apr 2021 14:59:55
# Commandline: needle
# -auto
# -stdout
# -asequence emboss_needle-I20210411-145951-0884-99979533-p1m.asequence
# -bsequence emboss_needle-I20210411-145951-0884-99979533-p1m.bsequence
# -datafile EDNAFULL
# -gapopen 10.0
# -gapextend 0.5
# -endopen 10.0
# -endextend 0.5
# -aformat3 pair
# -snucleotide1
# -snucleotide2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: Spike
# 2: YP_009825051.1
# Matrix: EDNAFULL
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 3902
# Identity: 3338/3902 (85.5%)
# Similarity: 3338/3902 (85.5%)
# Gaps: 220/3902 ( 5.6%)
# Score: 14767.0
#
#
#=======================================
########################################
# Program: needle
# Rundate: Sun 11 Apr 2021 14:58:51
# Commandline: needle
# -auto
# -stdout
# -asequence emboss_needle-I20210411-145825-0921-18453855-p1m.asequence
# -bsequence emboss_needle-I20210411-145825-0921-18453855-p1m.bsequence
# -datafile EBLOSUM62
# -gapopen 10.0
# -gapextend 0.5
# -endopen 10.0
# -endextend 0.5
# -aformat3 pair
# -sprotein1
# -sprotein2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: YP_009724390.1
# 2: YP_009825051.1
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 1277
# Identity: 974/1277 (76.3%)
# Similarity: 1111/1277 (87.0%)
# Gaps: 26/1277 ( 2.0%)
# Score: 5227.0
#
#
#=======================================
########################################
# Program: water
# Rundate: Sun 11 Apr 2021 14:59:48
# Commandline: water
# -auto
# -stdout
# -asequence emboss_water-I20210411-150227-0875-17911500-p1m.asequence
# -bsequence emboss_water-I20210411-150227-0875-17911500-p1m.bsequence
# -datafile EDNAFULL
# -gapopen 10.0
# -gapextend 0.5
# -aformat3 pair
# -snucleotide1
# -snucleotide2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: Spike
# 2: YP_009825051.1
# Matrix: EDNAFULL
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 3899
# Identity: 3339/3899 (85.6%)
# Similarity: 3339/3899 (85.6%)
# Gaps: 214/3899 ( 5.5%)
# Score: 14767.0
#
#
#=======================================
########################################
# Program: water
# Rundate: Sun 11 Apr 2021 15:01:35
# Commandline: water
# -auto
# -stdout
# -asequence emboss_water-I20210411-150132-0719-77463975-p2m.asequence
# -bsequence emboss_water-I20210411-150132-0719-77463975-p2m.bsequence
# -datafile EBLOSUM62
# -gapopen 10.0
# -gapextend 0.5
# -aformat3 pair
# -sprotein1
# -sprotein2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: YP_009724390.1
# 2: YP_009825051.1
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 1277
# Identity: 974/1277 (76.3%)
# Similarity: 1111/1277 (87.0%)
# Gaps: 26/1277 ( 2.0%)
# Score: 5227.0
#
#
#=======================================
########################################
# Program: needle
# Rundate: Sun 11 Apr 2021 14:58:44
# Commandline: needle
# -auto
# -stdout
# -asequence emboss_needle-I20210411-145840-0781-77472353-p2m.asequence
# -bsequence emboss_needle-I20210411-145840-0781-77472353-p2m.bsequence
# -datafile EDNAFULL
# -gapopen 10.0
# -gapextend 0.5
# -endopen 10.0
# -endextend 0.5
# -aformat3 pair
# -snucleotide1
# -snucleotide2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: EMBOSS_001
# 2: EMBOSS_001
# Matrix: EDNAFULL
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 4537
# Identity: 2620/4537 (57.7%)
# Similarity: 2620/4537 (57.7%)
# Gaps: 1196/4537 (26.4%)
# Score: 6866.0
#
#
#=======================================
########################################
# Program: needle
# Rundate: Sun 11 Apr 2021 14:56:16
# Commandline: needle
# -auto
# -stdout
# -asequence emboss_needle-I20210411-145615-0749-67668941-p1m.asequence
# -bsequence emboss_needle-I20210411-145615-0749-67668941-p1m.bsequence
# -datafile EBLOSUM62
# -gapopen 10.0
# -gapextend 0.5
# -endopen 10.0
# -endextend 0.5
# -aformat3 pair
# -sprotein1
# -sprotein2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: EMBOSS_001
# 2: EMBOSS_001
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 1454
# Identity: 434/1454 (29.8%)
# Similarity: 658/1454 (45.3%)
# Gaps: 282/1454 (19.4%)
# Score: 1564.0
#
#
#=======================================
########################################
# Program: water
# Rundate: Sun 11 Apr 2021 15:01:16
# Commandline: water
# -auto
# -stdout
# -asequence emboss_water-I20210411-150114-0500-99637372-p2m.asequence
# -bsequence emboss_water-I20210411-150114-0500-99637372-p2m.bsequence
# -datafile EDNAFULL
# -gapopen 10.0
# -gapextend 0.5
# -aformat3 pair
# -snucleotide1
# -snucleotide2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: EMBOSS_001
# 2: EMBOSS_001
# Matrix: EDNAFULL
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 4534
# Identity: 2619/4534 (57.8%)
# Similarity: 2619/4534 (57.8%)
# Gaps: 1196/4534 (26.4%)
# Score: 6866.0
#
#
#=======================================
########################################
# Program: water
# Rundate: Sun 11 Apr 2021 14:56:43
# Commandline: water
# -auto
# -stdout
# -asequence emboss_water-I20210411-145959-0244-32318291-p1m.asequence
# -bsequence emboss_water-I20210411-145959-0244-32318291-p1m.bsequence
# -datafile EBLOSUM62
# -gapopen 10.0
# -gapextend 0.5
# -aformat3 pair
# -sprotein1
# -sprotein2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: EMBOSS_001
# 2: EMBOSS_001
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 1440
# Identity: 433/1440 (30.1%)
# Similarity: 655/1440 (45.5%)
# Gaps: 276/1440 (19.2%)
# Score: 1568.5
#
#
#=======================================