New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 2139701	NA (NA)	12 (0.080)	7/164	NT	NA	intergenic (+216/+58)	yegH/asmA	inner membrane protein/suppressor of OmpF assembly mutants; putative outer membrane protein assembly factor; inner membrane‑anchored periplasmic protein
	?	NC_000913	= 2139734	NA (NA)					noncoding (33/37 nt)	REP146 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP146 (repetitive extragenic palindromic) element; contains 1 REP sequences

CGTTCACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACgcctgat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2139603‑2139701 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCTCGCTA  <  NC_000913/2139734‑2139629                                                                                                                                                                                                               CGTTCACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACG                                                                                                           >  2:2657068/1‑100  GTTCACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGC                                                                                                          >  1:3193208/1‑100  GTTCACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGC                                                                                                          >  1:1687698/1‑100  GTTCACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACG                                                                                                           <  1:2539140/99‑1    TCACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCT                                                                                                        <  1:948417/100‑1    TCACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCT                                                                                                        <  1:2386007/100‑1     CACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTG                                                                                                       >  2:563254/1‑100      ACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGCACGGCACAGCCTTCGGTCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGA                                                                                                      >  1:1743655/1‑100      ACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGA                                                                                                      >  1:1797947/1‑100       CCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGAT                                                                                                     >  2:3802941/1‑100       CCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGAT                                                                                                     <  2:3334245/100‑1                             GCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATGCGACGCGTAAAGCGTCGCATC                                                                               <  2:1853719/100‑1                                agtAACATCAAGTGAACGGAACAGCCTTCGATTTTACATATTCAGAATATAACGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGG                                                                            <  1:1381922/97‑1                                AGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGG                                                                            <  1:1226970/100‑1                                 GGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGGC                                                                           <  1:100758/100‑1                                 GGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGGC                                                                           <  2:1110957/100‑1                                 GGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGGC                                                                           <  2:2686629/100‑1                                   AACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGT                                                                         <  1:3320747/100‑1                                   AACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGT                                                                         <  1:1093068/100‑1                                    ACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTT                                                                        <  2:2898797/100‑1                                     CATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTn                                                                       <  1:3436598/100‑2                                       TCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGT                                                                     <  2:4048966/100‑1                                          AGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATAGAATGATGCCGCCACGAACGCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGC                                                                  <  2:3939022/100‑1                                                                                                    GCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCC        <  1:4160805/100‑1                                                                                                    GCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCC        >  2:2731786/1‑100                                                                                                    GCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCC        <  2:1423861/100‑1                                                                                                    GCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCC        >  1:403279/1‑100                                                                                                     CCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCT       >  1:1584013/1‑100                                                                                                     CCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCT       >  1:1583462/1‑100                                                                                                      CTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCTC      >  2:3107999/1‑100                                                                                                       TGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCTCG     <  1:3740694/100‑1                                                                                                       TGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCTCG     <  2:4078129/100‑1                                                                                                       TGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTC         >  1:3145976/1‑96                                                                                                        GATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGGTGTTCCTCGC    >  2:2644677/1‑100                                                                                                         ATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCTCGCT   <  1:1125874/100‑1                                                                                                         ATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCTCGCT   <  2:965721/100‑1                                                                                                          TAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCTCGCTA  <  1:920015/100‑1                                                                                                                                                                                                               CGTTCACCGGCTTGAGCGTTCCATAGTAGCGAGGAACATCAAGTGAACGGAACAGCCTTCGATCTTACATATTCAGAATATAATGATGCCGCCACGAACgcctgat‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2139603‑2139701 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCTGATAAGACGCGTAAAGCGTCGCATCAGGCGTTCGTGGCGGCATCATTATATTCTGAATATGTAAGATCGAAGGCTGTTCCGTTCACTTGATGTTCCTCGCTA  <  NC_000913/2139734‑2139629

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.