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)	46 (0.870) +GGC	39/258	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

ACACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4980445‑4980585 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAGCTCGC  >  NC_002947/4980586‑4980732                                                                                                                                              |||                                                                                                                                                     ACACAGGAACCGGCCGGGCACCAGGCTTTGCCATTGAAACACCGGGGCGGGCCCCGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGC                                                                                                                                                   <  5:122712/147‑1                      CAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACAC                                                                                                                            >  5:114331/1‑149                      CAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACAC                                                                                                                            >  3:43718/1‑149                       AGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACC                                                                                                                           <  6:114331/149‑1                                     ATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAA                                                                                                              >  4:161549/1‑148                                        GAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAA                                                                                                                               >  6:15814/1‑128                                          acggtcCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGCAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTTCGGCCCAAATTACAAACAACAAAGACAATACAATCATg                                                                                                         >  8:4642/7‑147                                                 GGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATC                                                                                                 >  3:55012/1‑149                                                    GGCAGCGGGGTCAGGCATAACCAGCAACAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCTTGAACCTTAACATTATTGGGGACGCTTTGAGGCCCCAATTACAAACACCAAATACAATACAAACATCCAGTCATCag                                                                                               >  4:71844/1‑146                                                              GCAGTCAGAACCAGCACCATAAAGGTGAACAAGGCCAGTAACGACACCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACTCCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCT                                                                                   <  3:71844/149‑1                                                              GCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCT                                                                                   >  5:187870/1‑149                                                                AGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGC                                                                                 <  4:55012/149‑1                                                                AGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTG                                                                                  >  8:197063/1‑148                                                                  GCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCAT                                                                               >  8:202798/1‑149                                                                      AACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATG                                                                           <  3:304960/149‑1                                                                       ACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGG                                                                          >  7:311152/1‑149                                                                             ACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTT                                                                    <  7:271656/149‑1                                                                             ACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTT                                                                    <  1:339605/149‑1                                                                             ACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTT                                                                     >  4:187037/1‑148                                                                               CAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAA                                                                                             <  8:309061/123‑1                                                                               CAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAA                                                                                             >  7:309061/1‑123                                                                                  CAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATGCATGGTCTGCATGATGGTGCTTTCAGT                                                                <  1:5105/149‑1                                                                                   AAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTG                                                               >  5:156924/1‑148                                                                                   AAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATG                                                                                       <  1:77425/124‑1                                                                                   AAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATG                                                                                       >  2:77425/1‑124                                                                                            AAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTTGAAATG                                                         >  6:179462/1‑145                                                                                            AAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCT                                                     <  8:311152/149‑1                                                                                            AAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATG                                                         <  5:179462/145‑1                                                                                             AGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCAGATTCTTGGGGCCTCTTCGCGGCCCCAATTAGAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTT                                                    <  5:308227/149‑1                                                                                             AGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTT                                                    <  7:197063/149‑1                                                                                              GGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTG                                                   <  4:43718/149‑1                                                                                              GGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTT                                                                     >  4:45483/1‑131                                                                                              GGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTT                                                                     <  3:45483/131‑1                                                                                                    TAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTG                                             <  3:161549/149‑1                                                                                                      ACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGC                                           <  6:156924/149‑1                                                                                                       CGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTGAGTGGAAATGGTCTTGGCATTGGCC                                          >  4:317234/1‑149                                                                                                       CGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCC                                          >  3:174231/1‑149                                                                                                                CTTCATTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAAAACCAAAGCCAATACAATCATCAGGTAATATTAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAATTG                                 >  8:41923/1‑149                                                                                                                     TTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTG                            >  5:272182/1‑149                                                                                                                     TTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCA                                                                                >  4:84905/1‑97                                                                                                                     TTCGCGTGAACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCA                                                                                <  3:84905/97‑1                                                                                                                              ACCTTCACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGA                    <  3:187037/148‑1                                                                                                                                   CACATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGG               <  6:187870/148‑1                                                                                                                                     CATTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTGAGTGGAAATGGTGTTGGGCTTGGACGGGTAGTTGCTCGTCGCCTTGATCAGGGTT            >  8:60488/1‑149                                                                                                                                       TTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCATTACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGGAGTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTAC          >  5:109481/1‑149                                                                                                                                       TTCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTAC          <  2:89861/149‑1                                                                                                                                        TCTTGGGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTAC          >  4:79954/1‑148                                                                                                                                             GGGCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAGCTC    >  4:318803/1‑149                                                                                                                                               GCCGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAGCTCGC  >  6:131174/1‑149                                                                                                                                              |||                                                                                                                                                     ACACAGGTAGCGGCCGGTGACCAGGCTTTGCCATTGATAGAACGGGGCGGGGGCAGCGGGGGCAGGCAGAACCAGCACCAGCAAGGGGAACAAGGCCAGTAACGACAGCCGCTTCATTCGCGTGAACCTTCACATTCTTGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4980445‑4980585 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCTTTGCGGCCCCAATTACAAACACCAAAGCCAATACAATCATCAGGTCATCTGAATG‑ATGGTCTGCATGATGGTGCTTTCAGTGGAAATGGTCTTGGCATTGGCCTGGTAGTTGCTCTGCGCCTTGATCAGGTTTACCAGCTCGC  >  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.