Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC	CP009273	354,080	Δ9 bp	coding (314‑322/900 nt)	cynR ←	transcriptional activator of cyn operon; autorepressor

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 354079	1 (0.010)	39 (0.560)	29/134	0.5	97.5%	coding (323/900 nt)	cynR	transcriptional activator of cyn operon; autorepressor
	?	CP009273	354089 =	1 (0.010)					coding (313/900 nt)	cynR	transcriptional activator of cyn operon; autorepressor

TCCTGCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/354013‑354079 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGATCGGCAACAT  >  CP009273/354089‑354151                                                                                                                                    TCCTGCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGA                                                                <  1:799566/68‑1  CCTGCGACTTTTCCTGTAGCTGGCGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTTAGGAG                                                               >  1:828630/1‑68     cCGACATTTCCTGTAGCGGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAG                                                            <  1:931569/67‑1     GCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAG                                                            <  1:2513868/68‑1     GCGACATTGAGTGTAGCTGGAGCGTGATGCTTGGTTAGCGGGCATAGAAATCCGCCATTAAGGAGTAG                                                            <  1:706794/68‑1       GACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCT                                                          >  1:421582/1‑68        ACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTC                                                         <  1:2327107/68‑1        ACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTC                                                         <  1:2463659/68‑1         CATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAACTCCGCCATTAAGGAGTAGCTCG                                                        >  1:452709/1‑68         CATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCG                                                        <  1:769927/68‑1          ATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGT                                                       >  1:3302378/1‑68            TTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAA                                                     >  1:5366668/1‑68             TCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAA                                                    <  1:2310446/68‑1                 GTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTG                                                >  1:4396844/1‑68                 GTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTG                                                >  1:6108340/1‑68                   AGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAATTCCGCCATTAAGGAGTAGCTCGTAAAGGTGGG                                              >  1:5279750/1‑68                    GCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGG                                             >  1:2492392/1‑68                    GCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGG                                             <  1:4343529/68‑1                     CTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGG                                            >  1:2376754/1‑68                          GCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACG                                       <  1:3082584/68‑1                          GCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACG                                       <  1:4899868/68‑1                           CGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTTACGG                                      >  1:2723087/1‑68                            GTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGC                                     <  1:1718163/68‑1                              GATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGTGGGTGACGGCGA                                   >  1:5777602/1‑68                                   TGGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGC                              >  1:6196356/1‑68                                    GGGATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCA                             >  1:3734/1‑68                                      GATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGC                           >  1:287599/1‑68                                      GATAGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGC                           >  1:5599340/1‑68                                         AGCGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGAT                        >  1:4254504/1‑68                                           CGCGCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCC                      >  1:3651765/1‑68                                              GCATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCG                   <  1:4071836/68‑1                                                ATAGAAATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCG                 <  1:2133098/68‑1                                                     AATCCGCCATTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGA            <  1:5783332/68‑1                                                              TTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGATCGGCAACA   <  1:99665/68‑1                                                              TTAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGATCGGCAACA   <  1:1927449/68‑1                                                              TTAAGGAGTAGCTCGTAAAGGGGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGATCGGCAACA   <  1:2720424/68‑1                                                               TAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGATCGGCAACAT  <  1:4273419/68‑1                                                               TAAGGAGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGATCGGCAACAT  <  1:3659930/68‑1                                                               TAAGGAGTAGCTCGTAAAGGTGGGGGGGACGGCGATACGCAGCGATCCTCGCGTCAGATCGGCAACAT  <  1:4391558/68‑1                                                                                                                                    TCCTGCGACATTTCCTGTAGCTGGAGCGTGATGCTGGGATAGCGCGCATAGAAATCCGCCATTAAGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/354013‑354079 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑AGTAGCTCGTAAAGGTGGGGGTGACGGCGATACGCAGCGATCCTCGCGTCAGATCGGCAACAT  >  CP009273/354089‑354151

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.