New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1411899 =	113 (1.250)	6 (0.080)	6/214	NT	7.1%	coding (50/936 nt)	ttcA	tRNA s(2)C32 thioltransferase, iron sulfur cluster protein
	?	NC_000913	= 1434958	67 (0.920)					pseudogene (51/51 nt)	ttcC	pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related

AAATTTACGGTATGTGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1412070‑1411899 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aagaaagaacaatacaacctgaacaaGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTTTGCCCCATTTT  <  NC_000913/1434958‑1434811                                                                                                                                                                                                                                                                                                                                  AAATTTACGGTATGTGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAA                                                                                                                                                                              <  1:134479/148‑1   ATTTACGGTATGTGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAA                                                                                                                                                                           <  1:363876/149‑1   ATTTACGGTATGTGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAA                                                                                                                                                                           <  7:300702/149‑1    TTTACGGTATGTGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCACCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGA                                                                                                                                                                            >  8:266892/1‑147       ACGGTATGTGGATTGATTACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGAAAAGTGTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGATAGA                                                                                                                                                                        <  2:346201/148‑1        CGGTATGTGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAA                                                                                                                                                                       <  3:355353/148‑1             TGTGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATA                                                                                                                                                                  >  1:220629/1‑148               TGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAA                                                                                                                                                               >  1:102833/1‑149               TGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAA                                                                                                                                                               <  3:331130/149‑1               TGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAA                                                                                                                                                               <  5:49189/149‑1                GGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAAC                                                                                                                                                              >  4:336953/1‑149                 GATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACC                                                                                                                                                             <  2:316362/149‑1                 GATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAAC                                                                                                                                                              <  8:11132/148‑1                    TGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTG                                                                                                                                                           >  1:9956/1‑148                      ATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAA                                                                                                                                                         >  7:180601/1‑148                        GACATGAACGACGAACAGATTGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACA                                                                                                                                                       >  6:136264/1‑148                          CATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAAGT                                                                                                                                                    <  8:193492/149‑1                              AACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAAGTAAG                                                                                                                                                 <  7:50726/148‑1                                                 TGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGACCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCT                                                                                                                             >  3:201847/1‑149                                                    TGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAA                                                                                                                                                                          >  4:55968/1‑101                                                    TGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAA                                                                                                                                                                          <  3:55968/101‑1                                                                       GTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTA                                                                                                        <  3:186459/148‑1                                                                            AAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTC                                                                                                  <  2:395141/149‑1                                                                                                        GTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACA                                                                      <  4:257945/149‑1                                                                                                                        ATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTTTTTTTCAATGTGTTATATTTCATCTGCGACAACTATAAGCTACGATAATC                                                      <  4:201847/149‑1                                                                                                                         TAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAAATCGCTGAATCATAAGTATTTTACTTATTTTTCAATGTCTTAAATATAATCAGCTACATCAATAAGCTACGATATTC                                                      >  5:648/1‑148                                                                                                                                                    AGAAAGAACAATACTACCTGAACATGTTAGGGCTAATTTCACAACTCTCTGTCTGATTAGTATTTTACTTATTTTTCAATGTGTTAATTTTGATAAGCGAAAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCC                           <  8:203081/148‑1                                                                                                                                                    AGAAAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCC                          >  3:75066/1‑149                                                                                                                                                    AGAAAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCC                          <  3:2360/149‑1                                                                                                                                                     GAAAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCCCAACTCTCTGACTCATAAGTATATTACTTATTTTTCAATGTGTTCAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCT                         >  1:100807/1‑149                                                                                                                                                       AAGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTT                       <  2:162703/149‑1                                                                                                                                                        AGAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTT                      <  2:195322/149‑1                                                                                                                                                         GAACAATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGGTAAATAACATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTG                     <  7:34845/149‑1                                                                                                                                                           ACAATACAACCTGAACAAGTAACGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTATTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCA                   <  4:98618/149‑1                                                                                                                                                             AATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGC                 >  8:220466/1‑149                                                                                                                                                              ATACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCG                >  6:183623/1‑149                                                                                                                                                               TACACCCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGT               >  1:95641/1‑149                                                                                                                                                               TACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGT               >  4:156511/1‑149                                                                                                                                                               TACAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGT               >  7:400772/1‑149                                                                                                                                                                 CAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATACTCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTT             <  8:139565/149‑1                                                                                                                                                                 CAACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTT             <  5:213314/149‑1                                                                                                                                                                  AACCTGAAGAAGTAAGGGCAAAAATCACAACTCTCTGACTCAAAAGTATTTTACTTATTTTTCAATGTGTTAAATATCCTCAGCGACAACAATAAGCTACGATATTCCACTCTTTTTTTGCCCCTTTTTTTCCCCTTTTGCAGCGTTTT            <  3:237599/149‑1                                                                                                                                                                  AACCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGAAGCGaatt            >  1:296055/1‑145                                                                                                                                                                  AACCTGAACAAGTAAGGGCAAAAATCACAACTCTATGACTCATAATTATTTTACTTATTTTTCAATGTGTTAAATATAATCATCGACAACAATAAGCTACGATAATCAACTCTTTTTTTGACACTTTTTTGCCCCTTTTGCAGAGTTTT            >  5:343084/1‑149                                                                                                                                                                    CCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTTTGC          >  7:381923/1‑149                                                                                                                                                                    CCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTTTGC          <  2:348243/149‑1                                                                                                                                                                    CCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCC                                      >  7:303705/1‑121                                                                                                                                                                    CCTGAACAAGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCC                                      <  8:303705/121‑1                                                                                                                                                                          CAAGTAAGGGCAAAAATCACAACTCTCTTACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTTTGCCCCATT    <  1:157529/149‑1                                                                                                                                                                            AGTAAGTGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTTTGCCCCATTTT  <  3:36828/149‑1                                                                                                                                                                            AGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTTTGCCCCATTTT  <  7:83065/149‑1                                                                                                                                                                            AGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTTTGCCCCATTTT  >  5:376177/1‑149                                                                                                                                                                                                                                                                                                                                  AAATTTACGGTATGTGGATTGATGACATGAACGACGAACAGATAGCCATGTTGAATGCGCGGTTATCGTAGTTGCAAAGTTTGCCCCCAATTTGCCCCATTTAGTACCAGAGAACTGAAATAATGCAAGAAAATCAACAAATTACAAAGAAAGAACAATACAACCTGAACAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1412070‑1411899 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aagaaagaacaatacaacctgaacaaGTAAGGGCAAAAATCACAACTCTCTGACTCATAAGTATTTTACTTATTTTTCAATGTGTTAAATATCATCAGCGACAACAATAAGCTACGATAATCCACTCTTTTTTTGCCCCTTTTTTGCCCCTTTTGCAGCGTTTTGCCCCATTTT  <  NC_000913/1434958‑1434811

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.