Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	NC_002947	4,980,585	+GGC	intergenic (‑24/+44)	PP_4387 ← / ← flgE	hypothetical protein/flagellar hook protein FlgE

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4980585	0 (0.000)	42 (0.770) +GGC	37/270	0.7	100%	intergenic (‑24/+44)	PP_4387/flgE	hypothetical protein/flagellar hook protein FlgE
	?	NC_002947	4980586 =	0 (0.000)					intergenic (‑25/+43)	PP_4387/flgE	hypothetical protein/flagellar hook protein FlgE

GGGCCGAACACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4980438‑4980585 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTT  >  NC_002947/4980586‑4980721                                                                                                                                                     |||                                                                                                                                          GGGCCGAACACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGG                                                                                                                                             >  1:240293/1‑149            AGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCG                                                                                                                                  <  6:344734/149‑1              GTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAATGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCG                                                                                                                                  <  6:350031/147‑1              GTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGC                                                                                                                                <  5:265259/149‑1                        GTGACCAGGCTTTGCCATTGATAGAACGCGGCGGGGGCAGCGGGGGCAGGCAGAACCAACACCAGAAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTAACATACTTGCGCCAGCTTTGCGGCCCCAATTAC                                                                                                                       >  3:285831/1‑148                            CCAGGCTTTGCCATTGATAGAACGGGGCGGGGGAAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAAC                                                                                                                   <  7:144962/148‑1                             CAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCTGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACAC                                                                                                                 <  2:240293/149‑1                             CAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACAC                                                                                                                 >  2:317934/1‑149                                  TTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACACCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAG                                                                                                            >  5:73287/1‑149                                        ATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAAT                                                                                                       >  2:247210/1‑148                                         TTGATAGAACGGGGCGGCGGCAGCGGGGGCACGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGAGAACCTTCACATTCTTGGGGCCGATTAGCGGCCCCAATTACAAACACCAAACCCAAaa                                                                                                      >  5:93972/1‑146                                            ATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAA                                                                                                   >  3:63362/1‑148                                             TAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATA                                                                                                      >  1:306050/1‑144                                             TAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATA                                                                                                      <  2:306050/144‑1                                                AACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAA                                                                                                             >  4:59686/1‑134                                                     GGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTC                                                                                         <  6:188386/149‑1                                                           GGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑G                                                                                   >  6:367225/1‑148                                                            GCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAA                                                                                 >  5:124353/1‑149                                                                           AGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGA                                                                  >  4:358678/1‑149                                                                             AACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATG                                                                >  6:251120/1‑149                                                                                      CAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCGTTGGGGCCCCAAATAAAAACACCAAAACCAAAACAATCAACAGGTGATCT‑GAATGATTGTGTGCATGGTGGTGCTTTa                                                        >  2:187913/1‑147                                                                                         CAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTG                                                    <  5:251120/149‑1                                                                                         CAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTG                                                    <  1:247210/149‑1                                                                                            GGGGAACAAGGCCAGTAACGTCAGCCGCTTCATTCGCGTGAACCTTCAGATTCTTGGGGCCGCTTTGAGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATTATGGTCTGCATGATGGTGCTTTCAGTGGAA                                                 <  6:93972/149‑1                                                                                               GAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATG                                              >  2:111106/1‑149                                                                                                  CAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTC                                           <  4:63362/149‑1                                                                                                   AAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTAGTATTATGGTCTGCAATATTGTGGTTTAAGTGGAAATTGTa                                           >  1:310710/1‑148                                                                                                    AGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAACCACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTG                                                    <  7:250604/138‑1                                                                                                    AGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTT                                         <  1:317934/149‑1                                                                                                     GGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTG                                        <  5:367225/149‑1                                                                                                           TAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTG                                  >  1:154888/1‑149                                                                                                              CGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCC                               <  6:73287/149‑1                                                                                                                 CAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGG                            <  1:187913/149‑1                                                                                                                      GCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTT                       >  7:89703/1‑149                                                                                                                      GCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTT                       <  6:124353/149‑1                                                                                                                            TTCGCGTGAACCTTCACATTCTTGGGGCCGGGTTGCGGCCCCAATTACATACCCCAAAGCCAATACAATCATCAGCTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTG                 >  5:19923/1‑149                                                                                                                              CGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGC                <  1:328167/148‑1                                                                                                                                 cTGAACCTTCACATTCTTGGGGCCGGATTGCGGCCCGAATTACAAACACCAAAGCCAATACATGCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGTAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCT            <  4:285831/148‑1                                                                                                                                 GTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCT            <  3:358678/149‑1                                                                                                                                       CTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGAT        >  5:170535/1‑147                                                                                                                                           ttgtaaTTGGGGCCGCAAAGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTT  >  1:161639/7‑149                                                                                                                                           ACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTT  <  7:121127/149‑1                                                                                                                                            CATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTATGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTT  >  2:46311/1‑148                                                                                                                                                     |||                                                                                                                                          GGGCCGAACACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4980438‑4980585 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCT‑GAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTT  >  NC_002947/4980586‑4980721

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.