New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4240156	NA (NA)	5 (0.050)	4/164	NT	NA	intergenic (‑101/‑169)	yjbT/psiE	putative periplasmic protein/phosphate starvation inducible protein
	?	NC_000913	= 4240189	NA (NA)					noncoding (33/37 nt)	REP314 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP314 (repetitive extragenic palindromic) element; contains 1 REP sequences

GTTCCAGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTgccggat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4240058‑4240156 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGGATAAGCCGCGCCTGGCGGCGCATCCGGCAAGACAAACCGCACCAAAGCCGGTAATTCAAAAATCACCCATTCAGGTGATTCCCAGCCACCAGCAATGCGCG  <  NC_000913/4240189‑4240084                                                                                                                                                                                                               GTTCCAGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTG                                                                                                           <  2:2541845/100‑1   TCCAGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCC                                                                                                         <  1:1313805/100‑1   TCCAGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCC                                                                                                         <  2:2397400/100‑1   TCCAGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGC                                                                                                          >  1:403759/1‑99    CCAGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTTATTTTCCGTCTTTGGTGAGGTTTGTCTTGCCG                                                                                                        >  2:2402292/1‑100    CCAGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCG                                                                                                        <  1:1517261/100‑1    CCAGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCC                                                                                                         >  1:2991259/1‑99      AGAGGAAGATTTTCGTTTTTTCGCGGATTGCTGGTGGCGGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCG                                                                                                        <  1:1892888/98‑1      AGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGA                                                                                                      <  1:3087988/100‑1      AGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGA                                                                                                      <  1:1657825/100‑1      AGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGA                                                                                                      >  1:1574009/1‑100       GAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGAT                                                                                                     >  2:1192946/1‑100        agtAACATTTTCTATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGG                                                                                                       <  1:1955888/94‑1         GGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGAT                                                                                                     <  1:1419797/98‑1                         TTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGAT‑‑‑‑‑GCGCCTGGCGGCGCATCC                                                                              <  2:2397573/100‑1                              GCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGAT‑‑‑‑‑GCGCCTGGCGGCGCATCCGGCAA                                                                         <  2:1561478/100‑1                                 TTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGATAAGCCGCGCCTGGCGGCGCATCCGGC                                                                           <  1:2055702/100‑1                                  TGCTGGTGGCTGGGAGTCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGATAAGCCGCGCCTGGCGGCGCATCCGGCA                                                                          <  1:3204653/100‑1                                   GCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTGCCGGATAAGCCGCGCCTGGCGGCGCATCCGGCAA                                                                         <  2:267867/100‑1                                                                                                     CCGGATAAGCCGCGCCTGGCGGCGCATCCGGCAAGACAAACCGCACCAAAGCCGGTAATTCAAAAATCACCCATTCAGGTGATTCCCAGCCACCAGCAAT       >  1:365814/1‑100                                                                                                      CGGATAAGCCGCGCCTGGCGGCGCATCCGGCAAGACAAACCGCACCAAAGCCGGTAATTCAAAAATCACCCATTCAGGTGATTCCCAGCCACCAGCAATG      >  1:1850669/1‑100                                                                                                       GGATAAGCCGCGCCTGGCGGCGCATCCGGCAAGACAAACCGCACCAAAGCCGGTAATTCAAAAATCACCCATTCAGGTGATTCCCAGCCACCAGCAATGC     >  1:2494564/1‑100                                                                                                       GGATAAGCCGCGCCTGGCGGCGCATCCGGCAAGACAAACCGCACCAAAGCCGGTAATTCAAAAATCACCCATTCAGGTGATTCCCAGCCACCAGCAATG      <  1:1117986/99‑1                                                                                                         ATAAGCCGCGCCTGGCGGCGCATCCGGCAAGACAAACCGCACCAAAGCCGGTAATTCAAAAATCACCCATTCAGGTGATTCCCAGCCACCAGCAATGCG    <  2:718523/99‑1                                                                                                          TAAGCCGCGCCTGGCAGCGCATCCGGCAAGACAAACCGCACCAAAGCCGGTAATTCAAAAATCACCCATTCAGGTGATTCCCAGCCACCAGCAATGCGCG  <  1:649193/100‑1                                                                                                                                                                                                               GTTCCAGAGGAACATTGTCGATTTTTCGCGCATTGCTGGTGGCTGGGAATCACCTGAATGGGTGATTTTTGAATTACCGGCTTTGGTGCGGTTTGTCTTgccggat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/4240058‑4240156 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCGGATAAGCCGCGCCTGGCGGCGCATCCGGCAAGACAAACCGCACCAAAGCCGGTAATTCAAAAATCACCCATTCAGGTGATTCCCAGCCACCAGCAATGCGCG  <  NC_000913/4240189‑4240084

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.