New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	1581603 =	125 (1.090)	7 (0.060)	6/234	NT	5.7%	coding (994/1155 nt)	ttgA	efflux pump periplasmic linker TtgA
	?	NC_002947	1581631 =	110 (1.000)					coding (966/1155 nt)	ttgA	efflux pump periplasmic linker TtgA

AAGGCCGGGGTCAACGCCAACGCCATCCTGGCACCGCAACAAGGCGTGACCCGCGACCTCAAGGGCGCACCCACCGCCCTGGTGGTCAACCAGGAGAACAAGGTCGAACTGCGCCAGCTCAAGGCCAGCCGC‑ACCTTGGGTAGCGACTGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/1581753‑1581603 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctggcCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGAGGTCGCGGGTCACGCCTTGTTGCGGTGCCAGGATGGCGTTGGCGTTGACCCCGGCCTTGAGCCGCGCATGCACGAACATGCCT  >  NC_002947/1581631‑1581778                                                                                                                                                                                                                                                                                                              AAGGCCGGGGTCAACGCCAACGCCATCCTGGCACCGCAACAAGGCGTGACCCGCGACCTCAAGGGCGCACCCACCGCACAGGAGGTCAACCAGGAGAACAAGGTCGAACTGCGCAAGCTCAAGGCCAGCCGC‑ACCTTGGGTAGCGACTGG                                                                                                                                                       >  1:1301239/1‑150                             TGGCACCGCAACAAGGCGTGACCCGCGACCTCAAGGGCGCACCCACCGCCCTGGTGGTCAACCAGGAGAACAAGGTCGAACTGCGCCAGCTCAAGGCCAGCCGC‑ACCTTGGGTAGCGACTGG                                                                                                                                                       >  2:490576/1‑122                             TGGCACCGCAACAAGGCGTGACCCGCGACCTCAAGGGCGCACCCACCGCCCTGGTGGTCAACCAGGAGAACAAGGTCGAACTGCGCCAGCTCAAGGCCAGCCGC‑ACCTTGGGTAGCGACTGG                                                                                                                                                       <  1:490576/122‑1                                                           TCAAGGGCGCACCCACCGCCCTGGTGGTCAACCAGGAGAACAAGGTCGAACTGCGCCAGCTCAAGGCCAGTCGCTACCCAAGGT‑GCGGCTGGCCTTGAGCTGG                                                                                                                                            <  2:309199/103‑1                                                                             CCCTGGTGGTCAACCAGGAGAACAAGGTCGAACTGCGCCAGCTCAAGGCCAGCCGC‑ACCTTGGGTAGCGAC                                                                                                                                                          >  1:2327788/1‑71                                                                             CCCTGGTGGTCAACCAGGAGAACAAGGTCGAACTGCGCCAGCTCAAGGCCAGCCGC‑ACCTTGGGTAGCGAC                                                                                                                                                          <  2:2327788/71‑1                                                                                                                  CCAGCTCAAGGCCAGCCGC‑ACCTTGGGTAGCGACTGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGA                                                                                     <  1:309199/103‑1                                                                                                                         AAGGCCAGCCGC‑ACCTTGGGTAGCGACTGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGT                                                                                               <  1:2998204/86‑1                                                                                                                         AAGGCCAGCCGC‑ACCTTGGGTAGCGACTGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGT                                                                                               >  2:2998204/1‑86                                                                                                                         AAGGCCAGCCGC‑ACCTTGGGTAGCGACTGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGG                                                                                                                    <  2:70932/65‑1                                                                                                                         AAGGCCAGCCGC‑ACCTTGGGTAGCGACTGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGG                                                                                                                    >  1:70932/1‑65                                                                                                                              CAGCCGC‑ACCTTGGGTAGCGACTGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGAGGTCGCGGGTCACGCCTTGTTGCGGTGCCAGGATGGCGTTGGCGTTGACCCCGGCCTTG                          >  2:63800/1‑150                                                                                                                                                    CTGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGG                                                                                                                    <  1:91486/39‑1                                                                                                                                                    CTGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGG                                                                                                                    >  2:91486/1‑39                                                                                                                                                     TGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGAGGTCGCGGGTCACGCCTTGTTGCGGTGCCAGGATGGCGTTGGCGTTGACCCCGGCCTTGAGCCGCGCATGCACGAACATGC    >  2:1926177/1‑150                                                                                                                                                     TGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGAGGTCGCGGGTCACGCCTTGTTGCGGTGCCAGGATGGCGTTGGCGTTGACCCCGGCCTTGAGCCGCGCATGCACGAACATGC    <  2:1050125/150‑1                                                                                                                                                     TGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGAGGTCGCGGGTCACGCCTTGTTGCGGTGCCAGGATGGCGTTGGCGTTGACCCCGGCCTTGAGCCGCGCATGCACGAACATGC    <  1:723931/150‑1                                                                                                                                                     TGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGT                                                                                                   >  2:1752736/1‑55                                                                                                                                                     TGGCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGT                                                                                                   <  1:1752736/55‑1                                                                                                                                                       GCCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGAGGTCGCGGGTCACGCCTTGTTGCGGTGCCAGGATGGCGTTGGCGTTGACCCCGGCCTTGAGCCGCGCATGCACGAACATGCCT  <  2:526815/150‑1                                                                                                                                                        CCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGAGGTCGCGGGTCACGCCTTGTTGCGGTGCCAGGATGGCGTTGGCGTTGACCCCGGCCTTGAGCCGCGCA                 >  2:202320/1‑134                                                                                                                                                        CCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGAGGTCGCGGGTCACGCCTTGTTGCGGTGCCAGGATGGCGTTGGCGTTGACCCCGGCCTTGAGCCGCGCA                 <  1:202320/134‑1                                                                                                                                                                                                                                                                                                              AAGGCCGGGGTCAACGCCAACGCCATCCTGGCACCGCAACAAGGCGTGACCCGCGACCTCAAGGGCGCACCCACCGCCCTGGTGGTCAACCAGGAGAACAAGGTCGAACTGCGCCAGCTCAAGGCCAGCCGC‑ACCTTGGGTAGCGACTGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/1581753‑1581603 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctggcCTTGAGCTGGCGCAGTTCGACCTTGTTCTCCTGGTTGACCACCAGGGCGGTGGGTGCGCCCTTGAGGTCGCGGGTCACGCCTTGTTGCGGTGCCAGGATGGCGTTGGCGTTGACCCCGGCCTTGAGCCGCGCATGCACGAACATGCCT  >  NC_002947/1581631‑1581778

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ 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.