New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4950413 =	43 (0.710)	4 (0.070)	4/248	NT	9.4%	coding (438/498 nt)	fliL	flagellar protein FliL
	?	NC_002947	4950455 =	37 (0.650)					coding (396/498 nt)	fliL	flagellar protein FliL

TCTGCACCAGCCCGTCGTCGACGCCATGCAACAGGGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACATCATCACCAGGTTGTTGCGGATCACCGGCATGTGCACCTTGAGGGCATC  >  NC_002947/4950268‑4950559                                                                                                                                                     |                                                                                                                                                   tCTGCACCAGCCTGTCGTCGACGCCATGCAACAGGGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTgc                                                                                                                                                 <  5:207693/149‑1 (MQ=255) tCTGCACCAGCCCGTCGTCGACGCCATGCAACAGGGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACTGCCATTGCGGACTCCTACTGAAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTgc                                                                                                                                                 <  5:260834/149‑1 (MQ=255)   tGCACCAGCCCGTCGTCGACGCCATGCAACAGGGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCt                                                                                                                                                   >  1:120891/1‑145 (MQ=255)   tGCACCAGCCCGTCGTCGACGCCATGCAACAGGGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCt                                                                                                                                                   <  2:120891/145‑1 (MQ=255)   agctgagtatcaccctacaggcgcgtaaccaggccgacctggatgccctcaaggtgcacatgccggtgatccgcaacaacctggtgatgatgttctccgggcaagggttcgacaccctcgccagcagcccggtagggcaggagatgctg                                                                                                                                                  >  7:69413‑M1/147‑149 (MQ=255)   agctgagtatcaccctacaggcgcgtaaccaggccgacctggatgccctcaaggtgcacatgccggtgatccgcaacaacctggtgatgatgttctccgggcaagggttcgacaccctcgccagcagcccggtagggcaggagatgctg                                                                                                                                                  <  4:83866‑M1/3‑1 (MQ=255)      tgagtatcaccctacaggcgcgtaaccaggccgacctggatgccctcaaggtgcacatgccggtgatccgcaacaacctggtgatgatgttctccgggcaagggttcgacaccctcgccagcagcctggtagggcaggagatgCTgcgc                                                                                                                                               >  2:116421‑M1/144‑149 (MQ=255)        agtatcaccctacaggcgcgtaaccaggccgacctggatgccctcaaggtgcacatgccggtgatccgcaacaacctggtgatgatgttctccgggcaagggttcgacaccctcgccagcagcccggtagggcaggagatgCTGCGCCa                                                                                                                                             >  8:112008‑M1/142‑149 (MQ=255)             cgtcgtCGACGCCATGCAACAGCGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACTGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTgg                                                                                                                                     <  5:372577/149‑1 (MQ=255)                       gCCATGCAACAGGGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCgg                                                                                                                           >  2:22857/1‑149 (MQ=255)                         cATGCAACAGGGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTg                                                                                                                         <  4:136328/149‑1 (MQ=255)                                 aGGGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CCA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTg                                                                                                                 >  1:215219/1‑149 (MQ=255)                                     cATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGgcg                                                                                                              >  3:78534/1‑148 (MQ=255)                                      aTCTATTTAATCCTTGTACTGCATGTCCTGTACGGCCATTGCGTACTCCTACTGCAATA‑CGA‑AATTGGTGAACACC‑AACTGCTCGATGACCGGCTTGCCGACTTACTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCgca                                                                                                            <  3:249570/149‑1 (MQ=255)                                          aTTTCATCCTGGGACAGCTGGTCCTTTACGGATTTTGCGCTCTCCTACTTAAATATCCACATTTGTTGACCCCCTAACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCgca                                                                                                            <  1:119091/148‑1 (MQ=255)                                                  ctcaaggtgcacatgccggtgatccgcaacaacctggtgatcatgttctccgggcaagggttcgacaccctcgccagcagcccggtagggcaggagattCTGCGCCACTACCTGGACCACCGCGGTGGCCTTCTGGCgca                                                                                                            <  6:213454‑M1/41‑1 (MQ=255)                                                  ctaaaggtgctctttcgggtgatccggaacaacctggggatgatgttctccgggcaagtgttagacaccctcgccagcagcccggtagggcaggagatgCTGCGCCACTTCCTGGAGCACCGCGGTGGCCTTCTGGCgca                                                                                                            >  5:213454‑M1/100‑140 (MQ=255)                                                   tGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGccc                                                                                               >  7:288114/1‑149 (MQ=255)                                                     ggACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGgcgc                                                                                                             >  3:62232/1‑133 (MQ=255)                                                     ggACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGgcgc                                                                                                             <  4:62232/133‑1 (MQ=255)                                                     ggACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTa                                                                                             >  3:83866/1‑149 (MQ=255)                                                       aCAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTAcc                                                                                           >  1:138165/1‑149 (MQ=255)                                                         agcagGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCgg                                                                                         >  2:194833/1‑149 (MQ=255)                                                          gcagGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCggg                                                                                        <  4:78534/149‑1 (MQ=255)                                                           cagGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCg                                                                                          >  6:230559/1‑146 (MQ=255)                                                           cagGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCg                                                                                          <  5:230559/146‑1 (MQ=255)                                                              atgccggtgatccgcaacaacctggtgatgatgttctccgggcaagggttcgacaccctcgccagcagcccggtagggcaggagatgCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCgcagca                                                                                                         >  6:876‑M1/88‑131 (MQ=255)                                                              atgccggtgatccgcaacaacctggtgatgatgttctccgggcaagggttcgacaccctcgccagcagcccggtagggcaggagatgCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCgcagca                                                                                                         <  5:876‑M1/44‑1 (MQ=255)                                                                 cTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGCCCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACAACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGTGCTGCTgg                                                                                 >  7:142325/1‑149 (MQ=255)                                                                      cGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAgg                                                                            <  3:273835/149‑1 (MQ=255)                                                                         ccATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGgtg                                                                         >  7:23188/1‑149 (MQ=255)                                                                          cATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGgtgt                                                                        >  2:36733/1‑149 (MQ=255)                                                                          cATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGgtgt                                                                        >  3:141671/1‑149 (MQ=255)                                                                             tGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCg                                                                      >  6:859/1‑148 (MQ=255)                                                                               cGGACACCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACAGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGCCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAAc                                                                   >  8:33417/1‑149 (MQ=255)                                                                                ggACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAAcc                                                                  <  3:301092/149‑1 (MQ=255)                                                                                    tCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGc                                                                                <  6:245020/131‑1 (MQ=255)                                                                                    tCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGc                                                                                >  5:245020/1‑131 (MQ=255)                                                                                    tCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTg                                                              >  6:125121/1‑149 (MQ=255)                                                                                      cTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGc                                                             <  8:288114/148‑1 (MQ=255)                                                                                         cTGCAATA‑CGA‑AATTGGTGAACTGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCgg                                                         <  7:91268/149‑1 (MQ=255)                                                                                         cTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGccc                                                           <  7:297442/147‑1 (MQ=255)                                                                                               tA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAAca                                                   <  5:859/149‑1 (MQ=255)                                                                                               tA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAAca                                                   >  7:246574/1‑149 (MQ=255)                                                                                                  cGA‑AATTGGTGACCAGC‑AACTGGGCGACGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAAcatc                                                 <  5:111574/149‑1 (MQ=255)                                                                                                  cGA‑AATTGGTGAACATC‑AACTGGGCGCTGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAAcat                                                  <  8:142325/148‑1 (MQ=255)                                                                                                       aTTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACAtcatca                                             <  1:22857/149‑1 (MQ=255)                                                                                                            tGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACATCATCACCAgg                                        <  2:215219/149‑1 (MQ=255)                                                                                                                cAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACATCATCACCAGgttg                                     <  7:227996/148‑1 (MQ=255)                                                                                                                cAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACATCATCACCAGgttg                                     >  8:227996/1‑148 (MQ=255)                                                                                                                  gC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACATCATCACCAGGttgttg                                  <  8:246574/149‑1 (MQ=255)                                                                                                                       tcgatCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGGGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACATCATCACCAGGTTGTTGCGGa                              <  4:33821/145‑1 (MQ=255)                                                                                                                              aTGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGTGTGTCGAACCCTTGCCCGGAGAACATCATCACCAGGTTGTTGCGGATCACCgg                       <  4:141671/149‑1 (MQ=255)                                                                                                                                   cGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACATCATCACCAGGTTGTTGCGGATCACCGGCAtgt                  <  1:36733/149‑1 (MQ=255)                                                                                                                                               ttccttcTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACATCATCACCAGGTTGTTGCGGATCACCGGCATGTGCACCTTGAggg      >  6:320311/1‑149 (MQ=255)                                                                                                                                                     CTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTTCCCTACCGGGCTGCTGGCGAGTGTGTCGAACCCTTGCCCGGAGAACATCATCACGAGGTTGTTGCGGATCACCGGCATTTGCACCTTGAGGGCATc  >  7:33417‑M1/1‑147 (MQ=255)                                                                                                                                                     |                                                                                                                                                   TCTGCACCAGCCCGTCGTCGACGCCATGCAACAGGGCATCGATTTCATCCTGGGACAGCAGGTCCTGTACGGCCATTGCGGACTCCTACTGCAATA‑CGA‑AATTGGTGAACAGC‑AACTGGTCGATGACCGGCTTGCCGACTTCCTTCTGCGCCACTTCCTGGACCACCGCGGTGGCCTTCTGGCGCAGCATCTCCTGCCCTACCGGGCTGCTGGCGAGGGTGTCGAACCCTTGCCCGGAGAACATCATCACCAGGTTGTTGCGGATCACCGGCATGTGCACCTTGAGGGCATC  >  NC_002947/4950268‑4950559

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.