Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
JC	NC_002947	4,980,585	+GGC	100%	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)	39 (0.700) +GGC	37/254	NT	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

CACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4980446‑4980585 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAG  >  NC_002947/4980586‑4980727                                                                                                                                             |||                                                                                                                                               CACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGCACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGACGCTTT                                                                                                                                          >  7:165942/1‑149      GTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGC                                                                                                                                     >  4:159552/1‑149           GGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAA                                                                                                                                >  1:322148/1‑149            GCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCaaagatc                                                                                                                                 >  7:56241/1‑140             CCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATT                                                                                                                              <  2:109117/149‑1              CGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTA                                                                                                                             >  7:31976/1‑149                ggGACCCGGCTTTGCCTTTGATACACCGGGGCGGGGGCAGCGGGGGCAGCCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACCACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCAAAGCGGCCCCAAgaatg                                                                                                                           <  6:339828/147‑6                     CAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACAC                                                                                                                      >  4:148859/1‑149                             ccctTTGATAGCCCGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACCGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCC                                                                                                               <  8:31976/144‑1                              CCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA                                                                                                             <  2:322148/149‑1                                    ATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAA                                                                                                        <  2:343746/148‑1                                        atgGGGGGGTGGGCAGGGGGGGCTGGCTGAACCAGCACCAGCAAGTGGAACAAGGCCAGTAACGACATCCGCTTCATTCTCTTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATC                                                                                                   <  5:177328/146‑1                                        AACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGGCGCTTTGCGGCCCCAATTACAAACCCCAAAGCCACTAGAAACAT                                                                                                    >  8:65042/1‑148                                                    GCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA                                                                                                             >  3:73056/1‑127                                                    GCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA                                                                                                             <  4:73056/127‑1                                                              CAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTG                                                                             <  3:148859/149‑1                                                              CAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACAC                                                                                                                      >  1:207139/1‑108                                                              CAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACAC                                                                                                                      <  2:207139/108‑1                                                                 GCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCAT                                                                          >  2:184285/1‑149                                                                        CAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG                                                                   <  3:87680/149‑1                                                                         AGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGC                                                                  >  6:286760/1‑149                                                                            ACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTT                                                               <  3:159552/149‑1                                                                                GCATGGGGAAAAAGGACAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGT                                                           <  8:165942/149‑1                                                                                      GGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAAT                                                     <  7:65042/149‑1                                                                                            AGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTT                                               <  1:184285/149‑1                                                                                             GGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTG                                              >  7:9862/1‑149                                                                                              GCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAACCCAAAACAATCATAACGTCATCAGAATGAAGGTCTGCATGATGTAGCTTTCAGTGTAATTGGTCATG                                              >  4:91839/1‑148                                                                                                               CTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGG                                             >  5:32289/1‑132                                                                                                               CTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGG                                             <  6:32289/132‑1                                                                                                                   ATTCGCGTGAACCTTCACATTCTTGGGGCCGCGTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATAATCAGGTGATATGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTATTTGCATTGGCCTGGTAGTTGCTat                        >  7:314413/1‑147                                                                                                                    TTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTG                       >  4:307843/1‑149                                                                                                                       GCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGC                                                                            <  5:262307/93‑1                                                                                                                       GCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAAATACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGC                                                                            >  6:262307/1‑93                                                                                                                              CCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGC                                            >  4:51074/1‑118                                                                                                                              CCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGC                                            <  3:51074/118‑1                                                                                                                                  CACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAG           <  8:9862/147‑1                                                                                                                                   ACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTT        <  5:286760/149‑1                                                                                                                                     ATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTG                                              >  2:41559/1‑109                                                                                                                                     ATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTG                                              <  1:41559/109‑1                                                                                                                                        CTTGGGGCCGCTTTTCGTCACAAATTACAAACACCAAAGCCAATACAATAATCATTTCATCTGAATGATTGTATGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTTTCCTGGTATTTGCTCTTCGACTTGATCAGGTTTACC    <  4:97222/148‑1                                                                                                                                         TTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACTAG  >  6:117488/1‑149                                                                                                                                         TTGGGGCCGCAAAGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAG  >  7:52997/1‑149                                                                                                                                             |||                                                                                                                                               CACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4980446‑4980585 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAG  >  NC_002947/4980586‑4980727

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.