New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	= 3635046	0 (0.000)	34 (1.160)	27/282	0.2	100%	coding (206/1053 nt)	yhiM	acid resistance protein, inner membrane
	?	NC_000913_3_pae_pgi	3652036 =	NA (NA)					intergenic (+5/+146)	yhiS/insH1	pseudogene/IS5 transposase and trans‑activator

CGCGTTAGGTGGCTTTGTGCTGGAAAGTTCAGGGCAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAATACGTTTTACAATACATTGTTCCCCATTATTGGCTATGCGGGGTCAATTATCACCATGATATGGGGTTGGGCACTGTTAGCAGGCAATGATGTGATGGCAGACGAGTTTGTCGCCGGCCATGTTATTTTCGGCGTTGGTATGATTGC  >  NC_000913_3_pae_pgi/3634903‑3635193                                                                                                                                                |                                                                                                                                                    cgcgTTAGGTGGCTTGGTGCTGGAAAGTTCAGGGCAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaag                                                                                                                                                <  2:140498‑M1/149‑6 (MQ=255)        ggTGGCTTTGTGCAGGAAAGTTCAGGCCAAAGCGAGTATTTCGTCGCGGGACATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaa                                                                                                                                         >  1:423894‑M1/1‑137 (MQ=255)          tGGCTTTGTGCTGGAAAGTTCAGGGCAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaata                                                                                                                                       >  1:436263‑M1/1‑135 (MQ=255)          tGGCTTTGTGCTGGAAAGTTCAGGGCAAAGCGAGTATTTCGACGCGGGTCATGTGCTGATTTCTCTGGCGGCCAGATGCCTGGCATTATTCACTACCGCGTTTATTATCATTTCGCCGCTCGCGCCCGGCGTTAAggaaggtgcgaata                                                                                                                                       >  1:244081‑M1/1‑135 (MQ=255)              tttGTGCTGGAAAGTTCAGGGCAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcg                                                                                                                                   <  1:300871‑M1/149‑19 (MQ=255)              tttGTGCTGGAAAGCTCATGGCAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcg                                                                                                                                   <  2:377015‑M1/149‑19 (MQ=255)                tgtgCTGGAAAGTTCAGGGCAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggg                                                                                                                                 <  1:208506‑M1/149‑21 (MQ=255)                   gCTGGAAAGTTCAGGGCAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaa                                                                                                                              >  2:334054‑M1/1‑126 (MQ=255)                    cTGGAAAGTTCAGGGCAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaa                                                                                                                             <  1:498583‑M1/149‑25 (MQ=255)                            ttCAGGGCAAAGCGAGTCTTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctc                                                                                                                     <  1:490656‑M1/149‑33 (MQ=255)                                   cAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATATATTATCCTTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgac                                                                                                              <  2:306375‑M1/149‑40 (MQ=255)                                     aaGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgaccc                                                                                                            >  2:247662‑M1/1‑108 (MQ=255)                                      aGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactca                                                                                                           <  2:338271‑M1/149‑43 (MQ=255)                                      aGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactca                                                                                                           <  2:354844‑M1/149‑43 (MQ=255)                                           gTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcat                                                                                                      <  1:334054‑M1/149‑48 (MQ=255)                                                    cgcgGGTCATGTTCTTATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttct                                                                                             <  1:462561‑M1/149‑57 (MQ=255)                                                            aTGTGCTGATTTCTGTGGCGGCCATATGGCTGGCATGATTCACTTCCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgttt                                                                                     <  2:395599‑M1/149‑65 (MQ=255)                                                            aTGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgttt                                                                                     >  2:298522‑M1/1‑85 (MQ=255)                                                            aTGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcgg                                                                                                                   >  1:28675‑M1/1‑85 (MQ=255)                                                            aTGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcgg                                                                                                                   <  2:28675‑M1/119‑35 (MQ=255)                                                            aTGGGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgttt                                                                                     <  2:299584‑M1/149‑65 (MQ=255)                                                              gtgCTGATTTCTCTGACAGCCAGGTTCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttga                                                                                   <  1:10115‑M1/149‑67 (MQ=255)                                                                 cTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagcc                                                                                >  2:363600‑M1/1‑80 (MQ=255)                                                                             gcggcCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcc                                                                    >  1:283962‑M1/1‑68 (MQ=255)                                                                             gcggcCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttcccggctgactcagtcatttcatttcttcatgtttgagccgattttttctcc                                                                    >  1:260089‑M1/1‑68 (MQ=255)                                                                                gcCATATGCCTTGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgt                                                                 <  2:222296‑M1/149‑85 (MQ=255)                                                                                        ccTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatatacgctggtttgagccgattttttctcccgtaaatgcct                                                         <  1:510737‑M1/149‑93 (MQ=255)                                                                                                     aCTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgt                                                                                       >  2:429008‑M1/1‑44 (MQ=255)                                                                                                     aCTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgt                                                                                       <  1:429008‑M1/106‑63 (MQ=255)                                                                                                         ccGCATTTATTATCATTTCGCAGCTCACGCGCGGTGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttag                                        >  1:243985‑M1/1‑40 (MQ=255)                                                                                                                    atCATTTCGAAGCTCACGCGCGGCGTTAAggaaggtgcgaataagccgggaaattcttctcggctgactcagtcatttcattgcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagaccgtttcttc                             <  2:363758‑M1/149‑121 (MQ=255)                                                                                                                                 tCACGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagaccgtttcttcgccatttaaggcg                >  1:185102‑M1/1‑16 (MQ=255)                                                                                                                                   aCGCGCGGCGTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagaccgtttcttagccatgtaaggcggt              >  1:197086‑M1/1‑14 (MQ=255)                                                                                                                                               aaggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagaccgtttcttcgccatttaaggcgttatccccagtttt  >  2:162598‑M1/1‑2 (MQ=255)                                                                                                                                                |                                                                                                                                                    CGCGTTAGGTGGCTTTGTGCTGGAAAGTTCAGGGCAAAGCGAGTATTTCGTCGCGGGTCATGTGCTGATTTCTCTGGCGGCCATATGCCTGGCATTATTCACTACCGCATTTATTATCATTTCGCAGCTCACGCGCGGCGTTAATACGTTTTACAATACATTGTTCCCCATTATTGGCTATGCGGGGTCAATTATCACCATGATATGGGGTTGGGCACTGTTAGCAGGCAATGATGTGATGGCAGACGAGTTTGTCGCCGGCCATGTTATTTTCGGCGTTGGTATGATTGC  >  NC_000913_3_pae_pgi/3634903‑3635193

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ 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.