New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4931072 =	23 (0.540)	4 (0.100)	4/246	NT	15.4%	coding (298/375 nt)	cheY	two‑component system response regulator
	?	NC_002947	4931101 =	22 (0.550)					coding (269/375 nt)	cheY	two‑component system response regulator

GTTTGTGATGAATCCATGACGCGCCCCCCCTGACGTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACCAGGAAGTCGTAGTGACCGTTTTCC  >  NC_002947/4930956‑4931247                                                                                                                                                  |                                                                                                                                                   gTTTGTGATGAATCCATGACGCGCCCCCCCTGACGTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCt                                                                                                                                                 >  4:109092/1‑149 (MQ=255)     gtgATGAATCCATGACGCGCCCCCCCTGACGTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTc                                                                                                                                             >  5:119632/1‑149 (MQ=255)      tgatgaATCCATGACGCGCCCCCCCTGACGTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCTCATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTc                                                                                                                                             <  1:52311/148‑1 (MQ=255)      tgatgaATCCATGACGCGCCCCCCCTGACGGGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTc                                                                                                                                             <  3:196527/148‑1 (MQ=255)              ccATGACGCGCCCCCCCTGACGTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATc                                                                                                                                                  >  6:40958/1‑135 (MQ=255)              ccATGACGCGCCCCCCCTGACGTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATc                                                                                                                                                  <  5:40958/135‑1 (MQ=255)                    cgcgCCCCCCCTGACGTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCTAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGc                                                                                                                              >  1:224513/1‑149 (MQ=255)                    cgcgCCCCCCCTGACGTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACATGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGc                                                                                                                              >  4:124950/1‑149 (MQ=255)                       ccggcatcgacctgctgcgtaaagtgcgtgccagcgacaagctgaaaagcatgccggtcttgatggtgaccgctgaagccaagcgcgaccagatCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGt                                                                                                                                              <  1:91262‑M1/36‑1 (MQ=255)                       ccggcatcgacctgctgcgtaaagtgcgtgccagcgacaagctgaaaagcatgccggtcttgatggtgaccgctgaagccaagcgcgaccagatCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGt                                                                                                                                              >  2:91262‑M1/95‑130 (MQ=255)                                   gTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGAc                                                                                                               <  6:119632/149‑1 (MQ=255)                                                   cgcgTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGc                                                                                               <  3:124950/149‑1 (MQ=255)                                                                ctgaaaagcatgccggtcttgatggtgaccgctgaagccaagcgcgaccagatCATTGACGCCAGCCTGGGCCGCTTCAATGATCTg                                                                                                                                                >  4:150767‑M1/54‑87 (MQ=255)                                                                ctgaaaagcatgccggtcttgatggtgaccgctgaagccaagcgcgaccagatCATTGACGCCAGCCTGGGCCGCTTCAATGATCTg                                                                                                                                                <  3:150767‑M1/34‑1 (MQ=255)                                                                 ttctcgatcttctcTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCtttt                                                                                                   <  2:220386/131‑1 (MQ=255)                                                                 ttctcgatcttctcTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCtttt                                                                                                   >  1:220386/1‑131 (MQ=255)                                                                          ttctcTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTAGTCGCTGGCACGCACTTTACg                                                                        >  3:54255/1‑149 (MQ=255)                                                                                    gCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTc                                                               <  2:224513/148‑1 (MQ=255)                                                                                            gCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGa                                                      >  1:22753/1‑149 (MQ=255)                                                                                                tGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATg                                                  >  1:121982/1‑149 (MQ=255)                                                                                                   aCGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGccc                                               <  2:22753/149‑1 (MQ=255)                                                                                                           aCCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGgc                                                                                    >  4:70170/1‑104 (MQ=255)                                                                                                           aCCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGgc                                                                                    <  3:70170/104‑1 (MQ=255)                                                                                                              accagatcattgaagcggcccaggctggcgtcaatgATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCgg                                                       >  2:91262‑M2/37‑130 (MQ=255)                                                                                                              accagatcattgaagcggcccaggctggcgtcaatgATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCgg                                                       <  1:91262‑M2/94‑1 (MQ=255)                                                                                                                cagatcattgaagcggcccaggctggcgtcaatgATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAg                                                                                                <  3:150767‑M2/53‑1 (MQ=255)                                                                                                                cagatcattgaagcggcccaggctggcgtcaatgATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAg                                                                                                >  4:150767‑M2/35‑87 (MQ=255)                                                                                                                              cAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTc                                      <  1:212196/131‑1 (MQ=255)                                                                                                                              cAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTc                                      >  2:212196/1‑131 (MQ=255)                                                                                                                              cAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACCAGGAAg                    >  2:237879/1‑149 (MQ=255)                                                                                                                              cAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACCAGGAAg                    >  8:205639/1‑149 (MQ=255)                                                                                                                                 ccTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACCAGGAAGTCg                 >  4:127262/1‑149 (MQ=255)                                                                                                                                     ggCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACCAGGAAGTCGTa               <  3:109092/147‑1 (MQ=255)                                                                                                                                       ccGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACCAGGAAGTCGTAGTGa           <  7:205639/149‑1 (MQ=255)                                                                                                                                          cTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCa                                                                                                                   <  2:233349/42‑1 (MQ=255)                                                                                                                                          cTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCa                                                                                                                   >  1:233349/1‑42 (MQ=255)                                                                                                                                          cTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACTACGACTTCCTGGTGAcc         >  7:194121/1‑148 (MQ=255)                                                                                                                                          cTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACTACGACTTCCTGGTGAcc         <  8:194121/148‑1 (MQ=255)                                                                                                                                                tgATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACCAGGAAGTCGTAGTGACCGTTTTcc  <  7:252278‑M2/147‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                   GTTTGTGATGAATCCATGACGCGCCCCCCCTGACGTGACTCAGCCGTTGACGCGTTCGAAGATCTTCTCGATCTTCTCTTTGAGCACCTGAGCGGTGAACGGCTTGACCACATAACCATTGACGCCAGCCTGGGCCGCTTCAATGATCTGGTCGCGCTTGGCTTCAGCGGTCACCATCAAGACCGGCATGCTTTTCAGCTTGTCGCTGGCACGCACTTTACGCAGCAGGTCGATGCCGGACATGCCCGGCATGTTCCAGTCGGTCACCAGGAAGTCGTAGTGACCGTTTTCC  >  NC_002947/4930956‑4931247

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.