New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5774063	40 (0.720)	3 (0.060)	3/244	NT	7.2%	coding (626/657 nt)	betI	choline‑responsive transcriptional repressor BetI
	?	NC_002947	= 5774094	39 (0.740)					coding (657/657 nt)	betI	choline‑responsive transcriptional repressor BetI

TCGGGTGATGCATTCGACACCGACCAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCGGCCACCGGCGAAGTCCTCGCCC  >  NC_002947/5773948‑5774242                                                                                                                                                       |                                                                                                                                                      tCGGGTGATGCATTCGACACCGACCAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGAc                                                                                                                                                      >  5:236555‑M2/1‑147 (MQ=255)   gggTGATGCATTCGACACCGACCAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGAcgcg                                                                                                                                                   <  7:197505‑M2/149‑5 (MQ=255)        aTGCATTCGACACCGACCAGGCGATACGGATTGCTTTCGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGc                                                                                                                                              >  7:30016/1‑149 (MQ=255)          gCATTCGACACCGACCAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGcc                                                                                                                                             >  4:63547/1‑148 (MQ=255)            aTTCGACACCGACCAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCaaa                                                                                                                                          >  5:195557/1‑149 (MQ=255)            aTTCGACACCGACCAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCa                                                                                                                                            >  6:257972/1‑147 (MQ=255)            aTTCGACACCGACCAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCa                                                                                                                                            <  5:257972/147‑1 (MQ=255)             ttCGACACCGACCAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAAc                                                                                                                                         <  7:7965/149‑1 (MQ=255)                         cAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCAc                                                                                                                             <  6:195557/149‑1 (MQ=255)                         cAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCAc                                                                                                                             >  3:119001/1‑149 (MQ=255)                          aGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACt                                                                                                                            <  3:63547/149‑1 (MQ=255)                             cGATACGGATTGCTTACGTATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTTACAATGCGCGCAGGGCACTT‑‑‑GGGAACGCG‑GCAGGAGCTTGACGCGCAAGCCAAACCACAGACTGCACTTGc                                                                                                                         <  5:12260/149‑1 (MQ=255)                             cGATACGGATTGCTTACGAATACATTGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGTAGCATGACGCGCAAGCCAAACCACACACTGCAGTTGc                                                                                                                         <  8:40669/149‑1 (MQ=255)                              gATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGc                                                                                                                         >  3:213027/1‑148 (MQ=255)                               aTACGGATTGCTTTCGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGa                                                                                                                       <  8:30016/149‑1 (MQ=255)                                    gATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACt                                                                                                                                 <  5:358898/134‑1 (MQ=255)                                    gATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACt                                                                                                                                 >  6:358898/1‑134 (MQ=255)                                         cTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATg                                                                                                             <  8:197505/149‑1 (MQ=255)                                         cTTAAGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCACTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATg                                                                                                             >  2:111952/1‑149 (MQ=255)                                            aCGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGc                                                                                                           <  6:244639/148‑1 (MQ=255)                                                 tACATGGAACTACTAGTGGCCATGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGTCAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGGATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGttt                                                                                                     <  3:48948/149‑1 (MQ=255)                                                              aaCTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCaaaaa                                                                                        <  5:352897/149‑1 (MQ=255)                                                                 tGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAActc                                                                                     >  4:341271/1‑149 (MQ=255)                                                                     cAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACa                                                                                 <  2:237860/149‑1 (MQ=255)                                                                     cAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACa                                                                                 >  3:322479/1‑149 (MQ=255)                                                                       agcataacacCTTGTTCAAAAACGACGAGGCTTCTGATTATGCGCTCAGGGCCCTTTCATCCAACCGGCCCAGATTCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTa                                                                                   <  1:111952/143‑1 (MQ=255)                                                                       agcagcACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCg                                                                                                   >  5:211505/1‑129 (MQ=255)                                                                       agcagcACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCg                                                                                                   <  6:211505/129‑1 (MQ=255)                                                                          agcaCACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGAt                                                                            <  4:119001/149‑1 (MQ=255)                                                                               acacTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCACGGCCCTT‑‑‑GCCAAACCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACAGCACTTCCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGgcgc                                                                       >  6:166758/4‑149 (MQ=255)                                                                                 ccTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTCCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGCCGCt                                                                      >  1:345192/1‑148 (MQ=255)                                                                                                    gctgctGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGa                                                 >  2:306388/1‑149 (MQ=255)                                                                                                         tgACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGAcgcgcattgtcagcagcctggtcgtttgtgcccagggtgtgctgcttggccagttgtagttccatgtattc                                                                                >  1:7141‑M2/1‑43 (MQ=255)                                                                                                         tgACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGAcgcgcattgtcagcagcctggtcgtttgtgcccagggtgtgctgcttggccagttgtagttccatgtattc                                                                                <  2:7141‑M2/114‑72 (MQ=255)                                                                                                          gACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCAc                                           >  2:100642/1‑149 (MQ=255)                                                                                                               tGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGAcgcgcattgtcagcagcctggtcgtttgtgcccagggtgtgctgcttggccagttgtagttccatgtattcgtaagcaatccgtatcgcctggtcggtgtcgaatgcatcaa                                       <  2:115117‑M2/149‑113 (MQ=255)                                                                                                                 cgcgcAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGaa                                    <  3:341271/149‑1 (MQ=255)                                                                                                                    gcAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAg                                                    <  2:29847/130‑1 (MQ=255)                                                                                                                    gcAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAg                                                    >  1:29847/1‑130 (MQ=255)                                                                                                                      aGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACGCTCGACGCTGGCAGCGATGCCACTTTCGAAGCCa                                <  1:228826/149‑1 (MQ=255)                                                                                                                             tt‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCg                        >  7:308541/1‑149 (MQ=255)                                                                                                                              t‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCgg                       >  5:98280/1‑149 (MQ=255)                                                                                                                                  gCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCgg                       <  4:213027/148‑1 (MQ=255)                                                                                                                                       cccG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCTACTTTCGAAGCCATCAACCCGGCCACCg                 >  2:134956/1‑149 (MQ=255)                                                                                                                                                gAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGaca                                                                                                                  >  2:186852/1‑45 (MQ=255)                                                                                                                                                gAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGaca                                                                                                                  <  1:186852/45‑1 (MQ=255)                                                                                                                                                gAGCATGACGCGCAAGCCAAACCACACACAGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCGGCCACCGGCGAAGTc         >  4:165124/1‑149 (MQ=255)                                                                                                                                                 aGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCGGCCACCGGCGAAGTc         >  4:335348/1‑148 (MQ=255)                                                                                                                                                    aTGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCGGCCACCGGCGAAGTCCTCg     >  8:182035/1‑149 (MQ=255)                                                                                                                                                     tGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCGGCCACCGGCGAAGTCCTCGc    >  2:97521/1‑149 (MQ=255)                                                                                                                                                     tGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATCGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCGGCCACCGGCGAAGTCCTCGc    >  6:154738/1‑149 (MQ=255)                                                                                                                                                       aCGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCGGCCACCGGCGAAGTCCTCGccc  >  3:37564/1‑149 (MQ=255)                                                                                                                                                       aCGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCGGCCACCGGCGAAGTCCTCGccc  <  1:100642/149‑1 (MQ=255)                                                                                                                                                       |                                                                                                                                                      TCGGGTGATGCATTCGACACCGACCAGGCGATACGGATTGCTTACGAATACATGGAACTACAACTGGCCAAGCAGCACACCCTGGGCACAAACGACCAGGCTGCTGACAATGCGCGCAGGGCCCTT‑‑‑GCCAACCCG‑GCAGGAGCATGACGCGCAAGCCAAACCACACACTGCACTTGCGAGGACACTATGGCCCGTTTCGGAACGCAAAAACTCTACATTGATGGCGCTTACG‑TCGACGCTGGCAGCGATGCCACTTTCGAAGCCATCAACCCGGCCACCGGCGAAGTCCTCGCCC  >  NC_002947/5773948‑5774242

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