New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 2154593 =112 (0.710)20 (0.140) 11/162 NT 17.3% coding (578/1248 nt) mdtA multidrug efflux system, subunit A
?NC_000913 2154624 = 89 (0.620)coding (609/1248 nt) mdtA multidrug efflux system, subunit A

GATCACCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCAGTCGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2154699‑2154593
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccagtcgaTGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTATCGATT  >  NC_000913/2154624‑2154721
                                                                                                                                                                                                             
GATCACCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTC                                                                                                           >  2:913044/1‑100
 ATCACCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCC                                                                                                          >  2:4039466/1‑100
 ATCACCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCC                                                                                                          <  1:751962/100‑1
  TCACCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCA                                                                                                         >  2:2444580/1‑100
  TCACCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCA                                                                                                         <  2:1501279/100‑1
    ACCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCAGT                                                                                                       >  2:1244092/1‑100
     CCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCAGTC                                                                                                      >  1:1856755/1‑100
     CCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCAGTC                                                                                                      <  1:49909/100‑1
     CCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCAGTC                                                                                                      >  1:2071803/1‑100
       ACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCAGTCGA                                                                                                    >  2:1578227/1‑100
                                   TTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGAGCCGGATTACCGCACCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGAT                                                                        <  1:3491144/100‑1
                                           CCAACATCAACCTGCTTGAGACCAACGCGACAATCGACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAA                                                                >  2:1152290/1‑100
                                                         CTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCAGTCGATGATCGCGTTGGTCTCAAGCAGGTTGATGTGGGTAACCAAATCTCCAGTG                                                  >  1:2066100/1‑100
                                                                      CGACCATCGACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGG                                     >  1:3846375/1‑100
                                                                         CCATCGACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGAT                                  >  2:4403757/1‑100
                                                                          CATCGACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATC                                 >  1:4355789/1‑100
                                                                          CATCGACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATC                                 >  2:3813888/1‑100
                                                                           ATCGACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCG                                >  1:1359158/1‑100
                                                                           ATCGACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCG                                >  1:74689/1‑100
                                                                            TCGACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGT                               >  2:3858330/1‑100
                                                                              GACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGGTGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGG                             >  2:2627206/1‑100
                                                                              GACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGG                             >  2:200558/1‑100
                                                                              GACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGG                             >  2:4346644/1‑100
                                                                              GACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGG                             >  2:216180/1‑100
                                                                              GACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGG                             >  1:3454588/1‑100
                                                                              GACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTG                              >  1:830553/1‑99
                                                                              GACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGT                               >  2:4202399/1‑98
                                                                              GACTGGTGCGGTAATCCGGCGCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTGACCAAATCTCCAGTGGTGATACCACCGGGATCGTGG                             >  2:874814/1‑100
                                                                               ACTGGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGT                            >  1:279047/1‑100
                                                                                  GGTGCGGTAATCCGGCTCCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGAT                         >  2:486376/1‑100
                                                                                                   CCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTA        <  2:2850133/100‑1
                                                                                                   CCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTA        >  2:386955/1‑100
                                                                                                   CCAGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCT         >  1:3921/1‑99
                                                                                                     AGTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTATC      <  1:3336612/100‑1
                                                                                                      GTCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTATCG     <  1:2592524/100‑1
                                                                                                       TCGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTATCGA    <  1:2574563/100‑1
                                                                                                        CGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTATCGAT   >  2:390821/1‑100
                                                                                                        CGATGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTATCG     <  1:4268891/98‑1
                                                                                                         GATGGTCGTGTTGGTCGCAAGCAGGGTGATGTGCGTAACCAAATCTCCAGGGGTTATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTATCGATT  <  1:2124486/100‑1
                                                                                                         GATGGTCGCGTTGGTCTCCAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGCTGATCACCCAGACGCATCCTATCGATT  >  1:2052190/1‑100
                                                                                                                                                                                                             
GATCACCACGATCCCGGTGGTATCACCACTGGAGATTTGGTTACCAACATCAACCTGCTTGAGACCAACGCGACCATCGACTGGTGCGGTAATCCGGCTCCAGTCGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/2154699‑2154593
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccagtcgaTGGTCGCGTTGGTCTCAAGCAGGTTGATGTTGGTAACCAAATCTCCAGTGGTGATACCACCGGGATCGTGGTGATCACCCAGACGCATCCTATCGATT  >  NC_000913/2154624‑2154721

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ 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.