New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1411899 =	68 (1.000)	7 (0.110)	7/486	5.1	14.7%	coding (50/936 nt)	ttcA	tRNA s(2)C32 thioltransferase, iron sulfur cluster protein
	?	NC_000913	= 1434958	20 (0.330)					pseudogene (51/51 nt)	ttcC	pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGCAAGAACGTGCTGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCGCAGCAATGTGCGGGCGTTAGTGTCAGCGCACAACCAGCACGGAGCACTCTGCGTGACGCACTACAGCTGCGGCG  >  NC_000913/1434671‑1435236                                                                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                                                                        tatGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGCAAGAACGTGCTGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAATATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAACTAAGTAAAATACTTATGAGTCAGAGCGTTGGTATTTTTGCCCTTACt                                                                                                                                                                                                                                                                                        >  1:325716/1‑289 (MQ=255)       tttGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGCAAGAACGTGCTGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCTTTACTTGttta                                                                                                                                                                                                                                                                                  >  1:13624/1‑287 (MQ=255)                  ggaATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGCAAGAACGTGCTGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTg                                                                                                                                                                                                                                                                        <  1:149690/288‑1 (MQ=255)                  ggaATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGCAAGAACGTGCTGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTg                                                                                                                                                                                                                                                                        <  1:233292/288‑1 (MQ=255)                                            tCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGCAAGAACGTGCTGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCTCTTACTTGTTCAGGTCGTATTGTTCTTTCTTACTAATTTCTTGATTTTg                                                                                                                                                                                                                                             >  1:128559/1‑289 (MQ=255)                                            tCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGCAAGAACGTGCTGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGAtttt                                                                                                                                                                                                                                              >  1:640545/1‑288 (MQ=255)                                                       gAAAAACCGCAGTCACGTCGTATGCAAGAACGTGCCGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTTGTAATTTGTTGAttttcttgcattattt                                                                                                                                                                                                                                  >  2:435953/1‑277 (MQ=255)                                                               gCAGTCACGTCGTATGCAAGAACGTGCTGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATACGTAAAATACTTATGAGTCCGAGAGTTGTGATTTTTGCCCTTACTTGCTTAGGTTGTATTGTTCTTTCTTACTATTTTCTTGTTTTTTCGACCTTTAATATCGtctc                                                                                                                                                                                                                          >  1:533117/1‑289 (MQ=255)                                                                                                                                  ttcgtgTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGAGGAAAAAAAGAGTGGATTAGCATAGCTTATTGTTGTCGCTGATGATATATAACGCATTGAAAAATAAGTAAAAGACTTATGAGTCAGAGAGTTGTGATTTTTGCCCATACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGAtata                                                                                                                                                       <  2:533117/284‑1 (MQ=255)                                                                                                                                            aaaaaaGTGGGAAAACAGTGAAAAAGGGGGAAAAAAGGGGAAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGGCGCTGATGTTATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACtgtg                                                                                                                                             <  2:13624/289‑1 (MQ=255)                                                                                                                                                        aaaCGGTGGAAAAGGGGCAAAAAAGGGTGAAAAGAAGATTGGATTATAGTGTCTTATTGTTGTCGCTAATGATATTTAACACATTGAAAAATAAGTAAAATGCTTATGAGTCAGGGAGTTGTGATTTTTGACCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTATTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTa                                                                                                                                 <  2:638291/289‑1 (MQ=255)                                                                                                                                                                                              gTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATg                                                                                           >  1:221932/1‑289 (MQ=255)                                                                                                                                                                                                           gCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTAGGGTACGGATTAGGGGGGAAATTGTCCGAACAATTGCGAAATGAAACAACAGG‑ccc                                                                             >  2:333610/1‑289 (MQ=255)                                                                                                                                                                                                                 ttttgaCGTTGTTGAGATTTAACACATTGAAAAATGAGTAAAATACTGTTGATTCAGATAGTTGTTATTTTTGCCCTCACTTGTTCAGGTTGTAGTGTTCTTTTTTACTAATTTCTTTATTTTGCGACATTTAAAAGCGACTCAAGTCGTTATATGGCATCAGAAGGTTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCGGATATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCgcagca                                                                       <  2:325716/287‑1 (MQ=255)                                                                                                                                                                                                                 tgttgtCGCTGATGATATTTAACACATTGAAAAATAAGTAAACTACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTAGCGTACGGTTTAGCGGGGAAAATGTTAGAACTTTTGCGAATAGAA‑CACAAAGTCCCgcagca                                                                       >  2:102189/1‑289 (MQ=255)                                                                                                                                                                                                                 tgttgtCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTAAGGATTAGCGGGGACAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCgcagca                                                                       >  1:638700/1‑289 (MQ=255)                                                                                                                                                                                                                    tgtCGCTGAGGAGTTTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGAGATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCGCAGCAAt                                                                     <  1:333610/288‑1 (MQ=255)                                                                                                                                                                                                                      tCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAAAGACCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATGAGAGGGAGAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCGCAGCAAtgtg                                                                  >  1:689384/1‑289 (MQ=255)                                                                                                                                                                                                                                    ttaaacaATGAAAAATAAGGTAAATACTTAGTAGTCAGTTAGTTGTGTGTGTTGCACTTACTTGTTCAGGTTGTATTGTTATTTCTTACTAATTTCTTGATTTTTCGACATTTAAAAGCGACTCAATTCGTTATATGTCATCAGAAGAGGATGGGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCGCAGCAATGTGCGGGCGTTAGTGTc                                                    <  2:89308/285‑1 (MQ=255)                                                                                                                                                                                                                                                                     gTCAGAGAGTGGTGATTTTTGCTCTTACTTGTTCAGTTTGTATTGGTCTATCTTACTAATTTCTTGAGTTTGCGAAATTTAAAAGAGACTCAATTCGTTAGATGGCATCAGAAGAGTATGCGTCAGGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCGCAGCAATGTGCGGGCGTTAGTGTCAGCGCACAACCAGCACGGAGCACTCTGCGTGa                    <  1:519548/288‑1 (MQ=255)                                                                                                                                                                                                                                                                                gtgATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCGCAGCAATGTTCGGGCGTTAGTGTCAACGCACAACAAGCACGGAGCACCCTGCGTGACGCACTACCGcg        >  2:448505/1‑288 (MQ=255)                                                                                                                                                                                                                                                                                   aTTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCGCAGCAATGTGCGGGCGTTAGTGTCAGCGCACAACCAGCACGGAGCACTCTGCGTGACGCACTACAGCTgcg     >  1:254010/1‑289 (MQ=255)                                                                                                                                                                                                                                                                                      tttGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCGCAGCAATGTGCGGGCGTTAGTGTCAGCGCACAACCAGCACGGAGCACTCTGCGTGACGCACTACAGCTgcggcg  >  1:115283/1‑289 (MQ=255)                                                                                                                                                                                                                                                                                        ttcccTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTaga                                                                                                                        <  2:295378/168‑1 (MQ=255)                                                                                                                                                                                                                                                                                        tGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTaga                                                                                                                        >  1:295378/1‑170 (MQ=255)                                                                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                                                                        TATGCCTTTGATGCGGAGGAATGAATGTGATGGGAGTGATGTATCTGAATAGTTGAAAAACCGCAGTCACGTCGTATGCAAGAACGTGCTGCGGTTGGTTTGACTTTGATTGAGACGTTTTGGAATTTTTTTCGGTGGCAAAAATGGGGCAAAACGCTGCAAAAGGGGCAAAAAAGGGGCAAAAAAAGAGTGGATTATCGTAGCTTATTGTTGTCGCTGATGATATTTAACACATTGAAAAATAAGTAAAATACTTATGAGTCAGAGAGTTGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCATAAGAAATCTGATATAAAAAACTGTGGCGTGTATGGTACGGATTAGAGGGGAAAATGTCAGCACATTTGCGAAATGAATCAAAAAG‑CCCGCAGCAATGTGCGGGCGTTAGTGTCAGCGCACAACCAGCACGGAGCACTCTGCGTGACGCACTACAGCTGCGGCG  >  NC_000913/1434671‑1435236

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ 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.