New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4126610	35 (0.720)	3 (0.060)	3/250	NT	9.0%	coding (751/1344 nt)	opdT‑II	tyrosine‑specific outer membrane porin D
	?	NC_002947	= 4126636	27 (0.580)					coding (725/1344 nt)	opdT‑II	tyrosine‑specific outer membrane porin D

CTCCAGATGTCGTTGTCAAAGGCGCCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGTCACGAAGTTCTCCCGCAGGTCGCTGGACATCGGCTGGCTCATAGCATG  >  NC_002947/4126489‑4126784                                                                                                                                                    |                                                                                                                                                     cTCCAGATGTCGTTGTCAAAGGCGCCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAg                                                                                                                                                     >  6:18625‑M2/1‑148 (MQ=255)  tCCAGATGTCGTTGTCAAAGGCGCCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAgc                                                                                                                                                    <  7:153652‑M2/149‑3 (MQ=255)       aTGTCGTTGTCAAAGGCGCCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAgccggc                                                                                                                                                <  3:26526‑M2/148‑7 (MQ=255)              tGTCAAAGGCGCCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAgccggagatcg                                                                                                                                           <  5:74912‑M2/146‑12 (MQ=255)              tGTCAAAGGCGCCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAgccg                                                                                                                                                  >  6:74912‑M2/1‑135 (MQ=255)                  aaaGGCGCCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGgc                                                                                                                                    >  5:197964/1‑149 (MQ=255)                  aaaGGCGCCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGgc                                                                                                                                    <  2:248169/149‑1 (MQ=255)                      gcgcCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACt                                                                                                                                            >  4:174574/1‑137 (MQ=255)                      gcgcCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACt                                                                                                                                            <  3:174574/137‑1 (MQ=255)                      gcgcCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGgctgac                                                                                                                                >  6:178626/1‑149 (MQ=255)                      gcgcCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGgctgac                                                                                                                                <  5:178626/149‑1 (MQ=255)                           cAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTa                                                                                                                                              >  3:33017/1‑130 (MQ=255)                           cAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTa                                                                                                                                              <  4:33017/130‑1 (MQ=255)                           cAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGgctgacgctga                                                                                                                           >  3:164083/1‑149 (MQ=255)                               cgcTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATg                                                                                                                       <  4:199856/149‑1 (MQ=255)                               cgcTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATg                                                                                                                       <  6:197964/149‑1 (MQ=255)                                       cccTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTg                                                                                                                <  5:178441/148‑1 (MQ=255)                                          ttCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGcc                                                                                                            >  7:59493/1‑149 (MQ=255)                                                 acaGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATc                                                                                                     >  3:285606/1‑149 (MQ=255)                                                            aTAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCccacca                                                                                           <  4:164083/148‑1 (MQ=255)                                                               gTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAgg                                                                                       >  8:292094/1‑149 (MQ=255)                                                                ttGAAACCGCCAATCAGCGCCAGCGCCTCGGTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGc                                                                                      >  1:23834/1‑149 (MQ=255)                                                                      ccGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCACCCACCATAGGCGATCCa                                                                                <  8:59493/149‑1 (MQ=255)                                                                       cGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAg                                                                               <  4:26526/149‑1 (MQ=255)                                                                              cagcgccagcgcCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAAt                                                                        >  4:191082/1‑149 (MQ=255)                                                                               agcgccagcgccTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATc                                                                       <  1:64264/149‑1 (MQ=255)                                                                                           tCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGgccgc                                                            >  5:38937/1‑148 (MQ=255)                                                                                           tCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGgccgc                                                            >  1:114221/1‑148 (MQ=255)                                                                                               tCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCa                                                          >  8:133264/1‑146 (MQ=255)                                                                                                     gCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCGCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGt                                                  >  7:30292/1‑148 (MQ=255)                                                                                                        aGCTCAGGCTGGTTCCGGCGTATTACTGGTTCCAGGCGTCGTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGTCACg                                              <  8:30292/149‑1 (MQ=255)                                                                                                               gCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCACCCCCACCATAGGCGATCCAGTGCGAATCGACCGGGCCGCCATAGAAGGTCACGAAGTtct                                       >  4:182403/1‑149 (MQ=255)                                                                                                                cTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAgccggcaccagcctgcgctggccactgcgcgaggcgctggcgctgattggcggtttcaactattacaaggctgtggatgaagggcagcagcgcctgggcgcctttgacaccg                                      <  1:81118‑M2/149‑113 (MQ=255)                                                                                                                 tGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGTCACGAAGTTCTcc                                     <  6:38937/149‑1 (MQ=255)                                                                                                                       cGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGgccg                                                             <  5:26651/119‑1 (MQ=255)                                                                                                                       cGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGgccg                                                             >  6:26651/1‑119 (MQ=255)                                                                                                                         gCGTAGTACTGGTTCCACGCGTCCTTGAgccggcaccagcctgagctggccactgagcgaggcgctggcgctgattggcggtttcaa                                                                                           <  1:275260‑M2/87‑60 (MQ=255)                                                                                                                         gCGTAGTACTGGTTCCACGCGTCCTTGAgccggcaccagcctgagctggccactgagcgaggcgctggcgctgattggcggtttcaa                                                                                           >  2:275260‑M2/1‑28 (MQ=255)                                                                                                                              gtaCTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGTCACGAAGTTCTCCCGCAGGTCGCTg                         <  7:292094/148‑1 (MQ=255)                                                                                                                                                 ttGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGTCACGAAGTTCTCCCGCAGGTCGCTg                         <  7:247758/129‑1 (MQ=255)                                                                                                                                                 ttGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGTCACGAAGTTCTCCCGCAGGTCGCTg                         >  8:247758/1‑129 (MQ=255)                                                                                                                                                 ttGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGTCACGAAGTTCTCCCGCAGGTCGCTGGACATCGGCTGGCTCATAg      >  3:102923/1‑148 (MQ=255)                                                                                                                                                    aGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGTCACGAAGTTCTCCCGCAGGTCGCTGGACATCGGCTGGCTCATAGCATg  <  2:23834/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                     CTCCAGATGTCGTTGTCAAAGGCGCCCAGGCGCTGCTGCCCTTCATCCACAGCCTTGTAATAGTTGAAACCGCCAATCAGCGCCAGCGCCTCGCTCAGTGGCCAGCTCAGGCTGGTGCCGGCGTAGTACTGGTTCCACGCGTCCTTGAGCCGGCTACTGAACAGGCTGACGCTGACATGCTCATTGAGCCTGTAATCCCCCCCACCATAGGCGATCCAGGGCGAATCGACCGGGCCGCCATAGAAGGTCACGAAGTTCTCCCGCAGGTCGCTGGACATCGGCTGGCTCATAGCATG  >  NC_002947/4126489‑4126784

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.