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)	43 (0.710) +GGC	38/276	0.9	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

GGCCGAACACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4980439‑4980585 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAGCTCGC  >  NC_002947/4980586‑4980732                                                                                                                                                    |||                                                                                                                                                      GGCCGATCAAAGGTCGCGGCGTGTGACCCGTCTTTCCCATTGATAGATCGGGGCGGGGGCAGCGGGGGCAGGAAGAACCAGCACCAGCAAGGGTAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGG                                                                                                                                                        <  6:139641/149‑1             GTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGC                                                                                                                                            >  2:36579/1‑149                   GCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTATTGGGGCCGCTTTCCGGCCCCAAT                                                                                                                                      >  2:44309/1‑149                          ACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAA                                                                                                                                >  6:161950/1‑148                          ACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAA                                                                                                                                <  5:276444/148‑1                                     CCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCA                                                                                                                     >  2:15297/1‑148                                            TAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCGCAATTACAAACACCAAAGCCAA‑TACAAa                                                                                                             >  7:111328/1‑147                                               AACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAAATACAAAAACAAAAGCCAA‑TACAATCAT                                                                                                          >  2:323432/1‑148                                               AACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACATTCACATTCTTGGGGCCGCTTTTCGGCCCCAATTAAAAACACCAAAGCCAA‑AACAATgag                                                                                                          >  4:182017/1‑145                                                 CGGCGCGGGGGCAGCGGGGGCAGGAATAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCTCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAG                                                                                                       <  3:45206/149‑1                                                  GGGGC‑GGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGT                                                                                                     >  1:186298/1‑149                                                      CGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACCCCAAAGCCAA‑TACAATCATCAGGTCAT                                                                                                  >  3:43928/1‑149                                                      CGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCAT                                                                                                  <  1:323432/149‑1                                                                 GGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAAGTACAATCATCAGGTCATCTGAATGATG                                                                                        <  1:15297/149‑1                                                                 GGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGG                                                                                       <  5:161950/149‑1                                                                              CCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGT                                                                          >  3:286018/1‑149                                                                                  CACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAAATAAAAACACCAAAGCCAA‑TACAATCATAAGGTCAACTGAATGATGGGATGCATGATGGTG‑Cgt                                                                     >  5:58329/1‑147                                                                                   ACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTT                                                                    <  4:286018/149‑1                                                                                     CAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCA                                                                  <  1:36579/149‑1                                                                                        CAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTG                                                               >  1:252043/1‑149                                                                                         AAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGACCCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATATGAAGGATGGTCTTCATGATGGTG‑CGTTCAGTG                                                               >  2:80731/1‑148                                                                                           GGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGA                                                             >  2:4815/1‑148                                                                                           GGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATAAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGA                                                             >  5:156065/1‑148                                                                                             GGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCGTTGCGGCCCCAAATAAAAACACCAAACCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAAT                                                          >  2:164141/1‑149                                                                                              GAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATG                                                         <  2:186298/149‑1                                                                                                   acGCCATTAACGAAACCCGGTTCAATAGCGTTAAACTTTACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTT                                                    <  1:44309/147‑1                                                                                                       CAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGAAGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGC                                                 >  8:159863/1‑148                                                                                                          TAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTGCCTTTCAGTGGAAATGGTCTTGGCATT                                              <  1:4815/149‑1                                                                                                             CGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCC                                          <  3:51975/149‑1                                                                                                              GACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCT                                         >  3:58411/1‑149                                                                                                              GACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCT                                         <  6:156065/149‑1                                                                                                                CAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATTGTCTTGGCATTGGCaggg                                       >  5:218156/1‑145                                                                                                                    CGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGGATGATGGGG‑GTTTCAGTGGAAATGGTCTTGGGATTGGCCTGGTAGT                                   >  4:332755/1‑149                                                                                                                        TCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCT                               >  7:48245/1‑149                                                                                                                                ttcAACCTTCACATTCTTGGGGCCTCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCG                          <  3:182017/143‑1                                                                                                                                      CTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGAT                   >  7:148270/1‑147                                                                                                                                            ATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTA           >  5:120278/1‑149                                                                                                                                            ATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTA           <  4:43928/149‑1                                                                                                                                             taaTTGGGGCCGCAAAGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGC                           <  1:10229/129‑1                                                                                                                                             taaTTGGGGCCGCAAAGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGC                           >  2:10229/4‑132                                                                                                                                             TTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATTGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTAC          <  1:80731/149‑1                                                                                                                                             TTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTAC          <  7:159863/149‑1                                                                                                                                                TTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTACATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCG                          <  7:93711/130‑1                                                                                                                                                TTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTACATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCG                          >  8:93711/1‑130                                                                                                                                                     GCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAGCTCGC  <  2:252043/149‑1                                                                                                                                                     GCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAGCTCGC  <  3:332755/149‑1                                                                                                                                                    |||                                                                                                                                                      GGCCGAACACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4980439‑4980585 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCTTTGCGGCCCCAATTACAAACACCAAAGCCAA‑TACAATCATCAGGTCATCTGAATGATGGTCTGCATGATGGTG‑CTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAGCTCGC  >  NC_002947/4980586‑4980732

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.