New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 228726	35 (1.000)	5 (0.150)	5/272	4.0	14.0%	intergenic (+64/‑30)	rrlH/rrfH	23S ribosomal RNA of rrnH operon/5S ribosomal RNA of rrnH operon
	?	NC_000913_3_pae_tpiA	= 3946682	28 (0.830)					intergenic (+75/‑18)	rrlC/rrfC	23S ribosomal RNA of rrnC operon/5S ribosomal RNA of rrnC operon
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GTTGATAGGCCGGGTGTGTAAGCGCAGCGATGCGTTGAGCTAACCGGTACTAATGAACCGTGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATTAA  >  NC_000913_3_pae_tpiA/3946534‑3946827                                                                                                                                                     |                                                                                                                                                  gTTGATAGGCCGGGTGTGTAAGCGCAGCGATGCGTTGAGCTAACCGGTACTAATGAACCGTGAGGCTTCACCTTACAACGCCGAAGAGGGTTTGGCGGATGAGAGAAGATTTTCAGCCTGGTACAGGTTAAATCAGAACGCAGAAgggg                                                                                                                                                   >  1:316394/1‑149 (MQ=11) gTTGAGTGGCCGGGTGTGTAAGCGCAGCGATGCGTTGAGCTAACCGGTACTAATGAACCGTGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCgg                                                                                                                                                   <  1:494118/149‑1 (MQ=17)      aaGGCCGGGTGTGTAAGAGCAGCGATGCGGGGATCTAATCGGTACTAATGAACCGTGAGTCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCtga                                                                                                                                              <  1:230499/148‑1 (MQ=11)                   tAAGCGCAGCGATGCGTTGAGCTAACCGGTACTAATGAACCGTGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAAttt                                                                                                                                 >  1:222040/1‑149 (MQ=34)                            cGATGCGTTGAGCTAACCGGTACTAATGAACCGTGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTggcgg                                                                                                                        >  1:403289/1‑149 (MQ=35)                                              ggTACTAATGAACCGTGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTccc                                                                                                      >  2:413813/1‑149 (MQ=35)                                              ggTACTAATGAACCGTGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAACTGGCCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGCTGCTccc                                                                                                      >  2:250632/1‑149 (MQ=11)                                               gTACTAATGAACCGTGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGTATGGGAGAAGATTTTCAGCCTAATACAGATTAAATAAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCa                                                                                                     >  1:288109/1‑149 (MQ=255)                                                tACTAATGAACCGTGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCAc                                                                                                    <  1:212129/149‑1 (MQ=35)                                                             tGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGcc                                                                                       >  2:369532/1‑149 (MQ=35)                                                             tGAGGCTTAACCTGACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGcc                                                                                       <  2:96419/149‑1 (MQ=25)                                                                  cTTAACCTTACAACGCCGAAGATGTTCTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACt                                                                                  >  2:416181/1‑149 (MQ=25)                                                                       ccTTACAACGCCGAAGATGTTTTGGCGCATGAGAGAAGATTTTCAGCCTGATACAGATGAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCCTGCCGAACTCAGaa                                                                             <  1:254389/149‑1 (MQ=255)                                                                                          ttttGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGGGAAACGCCGTAGCGCCg                                                          >  1:412595/1‑149 (MQ=17)                                                                                          ttttGGCGGATGAGAGAAGATTTTCAGACTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGGCTGGCGGCCGTGGCTGGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCg                                                          >  1:50997/1‑149 (MQ=11)                                                                                                  gATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCtgatg                                                                                                                                            <  1:380677/59‑1 (MQ=31)                                                                                                  gATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCtgatg                                                                                                                                            >  2:380677/1‑59 (MQ=31)                                                                                                         gaagaTTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACCCCGTAGCGCCGATGGTAGTGTGGGGt                                           >  1:592932/1‑149 (MQ=17)                                                                                                          aagaTTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTccc                                                                                                      <  2:213414/89‑1 (MQ=33)                                                                                                          aagaTTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTccc                                                                                                      >  1:213414/1‑89 (MQ=35)                                                                                                                ttCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAATGTGGGGTATCCCCa                                    >  1:266082/1‑149 (MQ=17)                                                                                                                     ccTGATACAGATTAAATGAGAACGCAGCAGCGGTCTGATGAAACAGAATTTGCCGGGCGGCCGTAGCGCGGTGGTCCCCCCTGACCCCATGCCGAACTCAGCAGTCAAATCGCGGAGCGCCGATGGTTTTGTGGGGTCTCCCCATGCga                               <  2:106052/149‑1 (MQ=11)                                                                                                                         aTACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGt                           <  1:156233/149‑1 (MQ=32)                                                                                                                             aGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGTATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAggg                       >  2:544116/1‑149 (MQ=17)                                                                                                                             aGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTACCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAggg                       >  2:490226/1‑149 (MQ=17)                                                                                                                                ttAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATACCGAACTCAGAAGTAAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAAGGAAc                    >  2:469351/1‑149 (MQ=12)                                                                                                                                ttAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGATGGTCCCACCTGACCCCATACCGAACTCAGAAGTAACACGCCGTAGCGCCGATGGGAGTGTGGGGTCTACCAATGCGGGAGTGGGGacg                    >  2:469350/1‑147 (MQ=11)                                                                                                                                     tCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCa               >  2:607096/1‑149 (MQ=32)                                                                                                                                        gAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGc            >  1:508898/1‑149 (MQ=32)                                                                                                                                              aGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCaaa      <  1:413813/149‑1 (MQ=32)                                                                                                                                                  gCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCGATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCGTTCATCAAATTaa  <  2:539027/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                  GTTGATAGGCCGGGTGTGTAAGCGCAGCGATGCGTTGAGCTAACCGGTACTAATGAACCGTGAGGCTTAACCTTACAACGCCGAAGATGTTTTGGCGGATGAGAGAAGATTTTCAGCCTGATACAGATTAAATCAGAACGCAGAAGCGGTCTGATGAAACAGAATTTGCCTGGCGGCCGTAGCGCGGTGGTCCCACCTGACCCCATGCCGAACTCAGAAGTGAAACGCCGTAGCGCCGATGGTAGTGTGGGGTCTCCCCATGCGAGAGTAGGGAACTGCCAGGCATCAAATTAA  >  NC_000913_3_pae_tpiA/3946534‑3946827

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.