New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	250227 =	47 (0.870)	6 (0.120)	5/244	NT	13.0%	coding (976/1347 nt)	nfeD	membrane bound peptidase NefD
	?	NC_002947	250271 =	37 (0.740)					coding (932/1347 nt)	nfeD	membrane bound peptidase NefD

TGCCGAGAGCAGCGCCAAGGTGCCGATCAAGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTCGAACAACAG  >  NC_002947/250123‑250416                                                                                                                                                     |                                                                                                                                                  gtggtcggtggtatctgcctgctgctggcgctgtatgcgctgcagctgttgccggtgagttttgccggggtggcgctgatcctgcttggcatcaccttcatgatCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGa                                                                                                                                                   >  5:172129‑M1/105‑149 (MQ=255)   ccGAGAGCAGCGCCAAGGTGCCGATCAAGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGAt                                                                                                                                                  <  1:176087/148‑1 (MQ=255)   ccGAGAGCAGCGCCAAGGTGCCGATCAAGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGAt                                                                                                                                                  <  8:179892/148‑1 (MQ=255)        agcagcGCCAAGGTGCCGATCAAGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGaa                                                                                                                                            <  7:283006/149‑1 (MQ=255)         gcagcGCCAAGGTGCCGATCAAGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAg                                                                                                                                           <  2:28657/149‑1 (MQ=255)           agcGCCAAGGTGCCGATCAAGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGt                                                                                                                                         >  3:117744/1‑149 (MQ=255)             cgcCAAGGTGCCGATCAAGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGa                                                                                                                                       <  6:332007/149‑1 (MQ=255)                     tGCCGATCAAGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAg                                                                                                                                >  7:262591/1‑148 (MQ=255)                       ccGATCAAGGCCAGGGGTATGCCGAAACCGTGAGGGGCGGTGTCGATCATGATCAATGCGCCGACCACAATGGCAACGATGCCGGCGAAGCCAACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAg                                                                                                                             <  1:93192/149‑1 (MQ=255)                             aaGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACTTCAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGCAACTGGGCAAGAAGGCTTAGGGGCTCATGAAGGTGATGCCAAGCAGGCTCAg                                                                                                                       >  1:98280/1‑149 (MQ=255)                              tgggcAGCGGGATGCCGTAACCGGGAGCGGCGGTGTCGATCAGGATCAATCGGCAGTCGACAAAGGCAACGATGCCGCCGAAGCCGACCAGTCCGAAACTGGGCAAGAAGGATTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAgc                                                                                                                      <  4:31646/145‑1 (MQ=255)                                 ccAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCCCAAAGGCAACGATGCCGCCGAAGCCGCCCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGcc                                                                                                                   >  8:256756/1‑149 (MQ=255)                                        gATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCg                                                                                                             >  4:201894/1‑148 (MQ=255)                                         aTGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAgc                                                                                                                      >  1:138294/1‑138 (MQ=255)                                         aTGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAgc                                                                                                                      <  2:138294/138‑1 (MQ=255)                                             cGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCaaaa                                                                                                       <  1:50021/149‑1 (MQ=255)                                               aaaCCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACt                                                                                                     >  8:310585/1‑149 (MQ=255)                                                          gTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCg                                                                                                <  7:202136/143‑1 (MQ=255)                                                          gTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCg                                                                                                >  8:202136/1‑143 (MQ=255)                                                                   gATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAgc                                                                                  <  3:201894/148‑1 (MQ=255)                                                                        ggATCAATGCGCCTACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATAc                                                                            <  3:294970/149‑1 (MQ=255)                                                                         gATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATa                                                                             >  4:81501/1‑147 (MQ=255)                                                                                   ccGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCcagcag                                                                 >  5:185098/1‑149 (MQ=255)                                                                                    ccaCCACAAAGGCAACGATGCAGCCTAAGACGACCACGCCGAAACAGGCCAAGAAGGCATCGTCGATCATGAAGGTCATTCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCcagcagc                                                                <  7:269513/147‑1 (MQ=255)                                                                                    ccaCCACAAAGGCAACGAAGCCGCCGAAGCCTACCACGCCGAAACTCGGCAAGAAGGCTTCGGCGATCATCAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACACCTGCAGCGCATACAGCGCcagcagc                                                                <  7:274259/147‑1 (MQ=255)                                                                                      aCCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCgg                                                                                               >  8:85757/1‑116 (MQ=255)                                                                                       cttcggcggCATCGTTGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAgcagg                                                             >  1:290178/8‑149 (MQ=255)                                                                                        cacaAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAgcagg                                                             >  7:149150/1‑148 (MQ=255)                                                                                         acaAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAgcagg                                                             >  6:166165/1‑147 (MQ=255)                                                                                            aaGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGAt                                                        <  4:320083/149‑1 (MQ=255)                                                                                            aaGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGAt                                                        <  6:185098/149‑1 (MQ=255)                                                                                             aGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAGCTCACCGGCAACAGCTGCAGCGCATa                                                                             <  4:100202/127‑1 (MQ=255)                                                                                             aGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAGCTCACCGGCAACAGCTGCAGCGCATa                                                                             >  3:100202/1‑127 (MQ=255)                                                                                                      tGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGAc                                               >  8:157680/1‑148 (MQ=255)                                                                                                        tcgccgaagccttcttgcccagtttcggcgtggtcggcttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACcac                                            >  5:172129‑M2/46‑149 (MQ=255)                                                                                                          GCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCcagcag                                                                 >  1:41062‑M1/1‑126 (MQ=255)                                                                                                          GCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCcagcag                                                                 <  2:41062‑M1/126‑1 (MQ=255)                                                                                                           ccgaagccttcttgcccagtttcggcgtggtcggcttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACAcc                                         >  1:259077‑M2/43‑149 (MQ=255)                                                                                                           ccgaagccttcttgcccagtttcggcgtggtcggcttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACAcc                                         >  2:247808‑M2/43‑149 (MQ=255)                                                                                                            cgaagccttcttgcccagtttcggcgtggtcggcttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATacca                                                    <  1:285346‑M2/96‑1 (MQ=255)                                                                                                            cgaagccttcttgcccagtttcggcgtggtcggcttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATacca                                                    >  2:285346‑M2/42‑137 (MQ=255)                                                                                                                 CCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCAc                                   >  4:117744‑M1/1‑149 (MQ=255)                                                                                                                  CGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCAcc                                  >  7:256756‑M1/1‑149 (MQ=255)                                                                                                                             aaaCTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTgg                       >  4:108159/1‑149 (MQ=255)                                                                                                                             aaaCTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTgg                       >  8:75808/1‑149 (MQ=255)                                                                                                                               aCTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGt                     <  8:149150/149‑1 (MQ=255)                                                                                                                                   ggCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCAt                 <  7:75808/149‑1 (MQ=255)                                                                                                                                   gcgtggtcggcttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCAt                 <  1:247808‑M2/131‑1 (MQ=255)                                                                                                                                    gCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGATCAt                 <  3:108159/148‑1 (MQ=255)                                                                                                                                     cAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATg                >  2:277804/1‑148 (MQ=255)                                                                                                                                         tcggcttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTc           <  6:172129‑M2/137‑1 (MQ=255)                                                                                                                                         aagGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTc           <  3:81501/149‑1 (MQ=255)                                                                                                                                           ggcttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTCg          >  1:53882‑M2/11‑148 (MQ=255)                                                                                                                                            gcttcgtcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTCGaa        <  7:157680‑M2/140‑1 (MQ=255)                                                                                                                                            gcttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTCGaa        <  8:262591‑M2/140‑1 (MQ=255)                                                                                                                                              ttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTCGaac       >  2:79899‑M2/8‑148 (MQ=255)                                                                                                                                              ttcggcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTCGaac       >  1:151299‑M2/8‑148 (MQ=255)                                                                                                                                                  gcgATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTCGAACAACAg  >  6:124823‑M2/4‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                  TGCCGAGAGCAGCGCCAAGGTGCCGATCAAGGCCAGGGGGATGCCGAAACCGGGAGCGTCGGTGTCGATCAGGATCAATGCGCCGACCACAAAGGCAACGATGCCGCCGAAGCCGACCACGCCGAAACTGGGCAAGAAGGCTTCGGCGATCATGAAGGTGATGCCAAGCAGGATCAGCGCCACCCCGGCAAAACTCACCGGCAACAGCTGCAGCGCATACAGCGCCAGCAGCAGGCAGATACCACCGACCACACCGCCCACCGCAGAACCTGGGTTCATGAATTCGAACAACAG  >  NC_002947/250123‑250416

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.