New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	2172308 =	NA (NA)	42 (1.890)	30/96	NT	100%	pseudogene (1563/2041 nt)	gatR	DNA‑binding transcriptional regulator; ECK2083:JW5340+JW2074:b4498
	?	W3110S.gb	= 3920281	0 (0.000)					coding (88/213 nt)	cspA	major cold shock protein

TTTTTGGCGGTCATTAATCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACAT  >  W3110S.gb/2172242‑2172374                                                                   |                                                                   tttttGGCGGTCATTAATCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGAt                                                                 <  1:2026457/70‑1 (MQ=255)   tttGGCGGTCATTAATCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCt                                                               >  1:1958296/1‑70 (MQ=255)    ttGGCGGTCATTAATCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCtt                                                              <  1:953947/70‑1 (MQ=255)     tGGCGGTCATTAATCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTa                                                             <  1:1706057/70‑1 (MQ=255)             aTTAATCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAAt                                                    <  1:1201168/71‑1 (MQ=255)                aaTCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGt                                                 >  1:1081655/1‑71 (MQ=255)                aaTCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGt                                                 >  1:110090/1‑71 (MQ=255)                aaTCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGACAATAACGGTCTGATCTTACCCAGCAATAGt                                                 >  1:800993/1‑71 (MQ=255)                  tCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGa                                                                  <  1:1624977/52‑1 (MQ=255)                    cTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCaa                                                     <  1:1414469/63‑1 (MQ=255)                         gCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACAcgcg                                        <  1:56061/71‑1 (MQ=255)                              aaGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGc                                      >  1:711043/1‑68 (MQ=255)                                   ttGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCt                                     <  1:1415209/64‑1 (MQ=255)                                     gTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAg                                  >  1:1674864/1‑65 (MQ=255)                                     gTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGt                             >  1:1786415/1‑70 (MQ=255)                                      tCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTa                            <  1:1884565/70‑1 (MQ=255)                                          aCTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCaa                                                     >  1:1822907/1‑41 (MQ=255)                                          aCTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCaa                                                     >  1:693097/1‑41 (MQ=255)                                           cTTCCGCTGTCGACAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAActc                       <  1:2842/70‑1 (MQ=255)                                            ttCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGc                                                       <  1:86638/37‑1 (MQ=255)                                            ttCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAAct                        <  1:550070/68‑1 (MQ=255)                                             tCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAActct                      >  1:2018496/1‑69 (MQ=255)                                              ccGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATa                                                   >  1:1189752/1‑39 (MQ=255)                                               cGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtcagt                  >  1:2129445/1‑71 (MQ=255)                                               cGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtcagt                  >  1:1108754/1‑71 (MQ=255)                                                    tCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCaga              <  1:199740/70‑1 (MQ=255)                                                      gagaATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGt           >  1:1855267/1‑71 (MQ=255)                                                      gagaATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGt           >  1:1500217/1‑71 (MQ=255)                                                        gaATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGa         >  1:378660/1‑71 (MQ=255)                                                        gaATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGa         >  1:1989085/1‑71 (MQ=255)                                                         aaTAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtcagt                  <  1:1762831/61‑1 (MQ=255)                                                           tAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACt       >  1:1970403/1‑70 (MQ=40)                                                             aCGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTca     >  1:1636219/1‑70 (MQ=37)                                                               ggTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACAt  <  1:35628/71‑1 (MQ=32)                                                                   |                                                                   TTTTTGGCGGTCATTAATCCTTCGGCGATAAGCATTGTCGTACTTCCGCTGTCGAGAATAACGGTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACAT  >  W3110S.gb/2172242‑2172374

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ 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.