Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	57,276	IS2 (+) +5 bp	intergenic (‑167/‑84)	lptD ← / → djlA	lipopolysaccharide assembly protein LptD/co‑chaperone protein DjlA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	57276 =	0 (0.000)	19 (1.340)	16/310	0.0	100%	intergenic (‑167/‑88)	lptD/djlA	lipopolysaccharide assembly protein LptD/co‑chaperone protein DjlA
	?	NC_000913	= 382590	NA (NA)					noncoding (1331/1331 nt)	IS2	repeat region
*	?	NC_000913	= 57280	0 (0.000)	19 (1.340)	16/310	0.0	100%	intergenic (‑171/‑84)	lptD/djlA	lipopolysaccharide assembly protein LptD/co‑chaperone protein DjlA
	?	NC_000913	381260 =	NA (NA)					noncoding (1/1331 nt)	IS2	repeat region

GGCGAGGTCGGCTGCCAGTCCCTGTTGACTATAAAGGGCGGTGGCAATCATGGTGGCCAGGAGAGTGGGGATACGTTTTTTCATACGTTGATTTTATTGTTCCATCATCGGTAACGTTGCGCGTGACAAACGGTCAGAGACTAACGTACTCGTCATCTCTACGCTAGTGTTAATCCTGTCCGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCGTGTGTCGATTTGGGGAATATATGCAGTATTGGGGAAAAATCATTGGCGTGGCCGTGGCCTTACTGATGGGCGGCGGCTTTTGGGGCGTAGTGTTAGGCCTGTTAATTGGCCATATGTTTGATAAAGCCCGTAGCCGTAAAATGGCGTGGTTCGCCAACCAGCGTG  >  NC_000913/57026‑57508                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                         ggCGAGGTCGGCTGCCAGTCCCTGTTGACTATAAAGGGCGGTGGCAATCATGGTGGCCAGGAGAGTGGGGATACGTTTTTTCATACGTTGATTTTATTGTTCCATCATCGGTAACGTTGCGCGTGACAAACGGTCAGAGACTAACGTACTCGTCATCTCTACGCTAGTGTTAATCCTGGCCGAATATCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGGATGATAATGCAAATTATAGGCGATGTcc                                                                                                                                                                                                                                          <  1:269097/251‑1 (MQ=255)  gCGAGGTCGGCTGCCAGTCCCTGTTGACTATACAGGGCGGTGGCAATCATGGTGGCCAGGAGAGTGGGGATACGTTTTTTCATACGTTGATTTTATTGTTCCATCATCGGTAACGTTGCGCGTGACAAACGGTCAGAGACTAACGTACTCGTCATCTCTACGCTAGTGTTAATCCTGTCCGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTccc                                                                                                                                                                                                                                         >  1:42467/1‑251 (MQ=255)              ggagagtaacggaatagcagagagcttcgtgaaaacgataaagcgtgactacatacgtatcatgcccaaaccagacgggttaacggcagcaaagaaccttgcagaggcgttagagcattataacgaatggcatccgcatagagcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatctaggggcaaatccaCCACACTTGACCGc                                                                                                                                                                                                                             <  1:232505‑M1/14‑1 (MQ=255)                               ataAAGGGCGGTGGCAATCATGGTGGCCAGGAGAGTGGGGATACGTTTTTTCATACGTTGATTTTATTGTTCCATCATCGGTAACGTTGCGCGTGTCAAACGGTCAGAGACTAACGTACTCGTCATCTCGACGCTAGTGTTAATCCTGTCCGAATAGCGTCAGTGGTGTTAGGCACGGCATTTAATGACAGTTATGAGAATCCAAATTAAAGGCGATGTCCCACAtagactggccccctgaatctccagac                                                                                                                                                                                                            <  1:181499‑M1/251‑27 (MQ=255)                                        tcgtgaaaacgataaagcgtgactacatcagtatcatgcccaaaccagacgggttaacggcagcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCtt                                                                                                                                                                                                    >  1:178982‑M1/212‑250 (MQ=255)                                         gTGGCAATCATGGTGGCCAGGAGAGTGGGGATACGTTTTTTCATACGTTGATTTTATTGTTCCATCATCGGTAACGTTGCGCGTGACAAACGGTCAGAGACTAACGTACTCGTCATCTCTACGCTAGTGTTAATCCTGTCCGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAtagactggcc                                                                                                                                                                                                                            <  1:233819‑M1/225‑11 (MQ=255)                                             cAATCATGGTGGCCAGGAGAGTGGGGATACGTTTTTTCATACGTTGATTTTATTGTTCCATCATCGGTAACGTTGCGCGTGCCAAACGGTCAGAGACTAACGTACTAGTCATCTCTACGCTAGTGTTAATCCTGTCCGAATAGCGTCCGTGGTGTTAGGCACGGCATTGAATGACAGGGATGATAATGCAAATTATAGGCGATGTCCCACAta                                                                                                                                                                                                                                    >  1:234930‑M1/1‑211 (MQ=255)                                                                           gTTTTTTCATACGTTGATTTTATTGTTCCATCATCGGTAACGTTGCGCGTGACAAACGGTCAGAGACTAACGTACTCGTCATCTCTACGCTAGTGTTAATCCTGTCCGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAtagactggccccctgaagctccagacaaccaatatcacttaaataagtgatagtcttaatactagttttt                                                                                                                                                                <  1:145168‑M1/251‑71 (MQ=255)                                                                               ccaaaccagacgggttaacggcagcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCcgtgtgtn                                                                                                                                                                 >  1:59257‑M1/173‑245 (MQ=255)                                                                                         cgggttaacggcagcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctccggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcacatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCGTGTGTCGATTTGGGGAatat                                                                                                                                                   <  1:224861‑M1/88‑1 (MQ=255)                                                                                           ggttaacggcagcaaagaaccttgcagaggcgttcgagcattataacgaatggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaCCACAATTGACCGCAGCCGGAAAACGGTAACAGCACCTTTATATTGTGGGCGATAGCCCTGATATCCGTGTGTCGATTTGGGGAATATATg                                                                                                                                                <  1:4426‑M1/91‑1 (MQ=255)                                                                                            gttaacggcagcaaagaaccttgcagaggcgttcgagcattataacggatggcatccgcagagtgcgctgggttatcgctcgccactggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaagccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCAcc                                                                                                                                                                                                      >  1:323298‑M1/160‑196 (MQ=255)                                                                                                              ggTAACGTTGCGCGTGACAAACGGTCAGAGACTAACGTAATCGTCATCTCTACGCTAGTGTTAATCCTGTCCGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAtagactggccccctgaatctccagacaaccaatatcact                                                                                                                                                                                               >  1:187253‑M1/1‑146 (MQ=255)                                                                                                                               agcattataacgaatggcatccgcatagtgcgctgggttatcgctcgccacgggcatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaCCACAAtt                                                                                                                                                                                                                                   <  1:303519‑M1/8‑1 (MQ=255)                                                                                                                                  aCGGTCAGAGACTAACGTACTCGTCATCTCTACGCTAGTGTTAATCCTGTCCGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAtagactggccccctgaatctccagacaaccaatatcacttaaataagtgatagtcttaatactagtttttagactagtcattggagaacagatgattgatgtc                                                                                                                               >  1:4910‑M1/1‑126 (MQ=255)                                                                                                                                     ataacgaatggcatccgcatagtgagctgggttatcgctcgccacgggaatatctgcggcagagggcttgtaatgggttacgtgataaaagatgtctggaaatataggggcacatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCGTGTGTCGATTTGGGGAATATATGCAGTATTGGGGAAAAATAATTGGCGTGGCCGTGGCCTTACTg                                                                                                      <  1:313526‑M1/133‑1 (MQ=255)                                                                                                                                           aatggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTAGATTGTGGGAGATAGCCCTGATATCCGTGTGTCGATTTGGGGAATATATGCAGTATTGGGGGAAAATCATGGGCGTGGCCGTGGCCTTACTGATGggc                                                                                                >  1:102410‑M1/113‑251 (MQ=255)                                                                                                                                              ggcatccgcatagtgcgctgggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCGTGTGTCGATTTGGGGAATATATGCAGTATTGGGGAAAAATCATTGGCGTGGCCGTGGCCTTACTGATgggcggn                                                                                             >  1:94075‑M1/110‑250 (MQ=255)                                                                                                                                                     gcatagtgcgctgggttatcgctagcaacgggaatctctgcggcagcgggcttgtaatgggttaagtgataacagctgtctggaaatataggggcaaatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCGTGTGTCGATTTGGGGAATATATGCAGTATTGGGGAAAAATCATTGGCGTGGCCGTGGCCTTACTGATGGGCGGCGGCtttt                                                                                      <  1:256779‑M1/149‑1 (MQ=255)                                                                                                                                                                 gggttatcgctcgccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGAGAGCCCTGTTATCCGTTTGTCGATTTGTGGAATATATGCAGTATTGGGGAAAAATCATTGGCGTTGCCGTGGCCTTACTGATGGGCGGCGGCTTTTGGGGCGTAgt                                                                            >  1:302922‑M1/91‑249 (MQ=255)                                                                                                                                                                       ttgttAATCCTGTCCGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGAGAATGCAAATTATAGGCGATGTCCCACAtagactggccccctgaatctccagacaaccaatatcacttaaataag                                                                                                                                                                                       <  1:283890‑M1/135‑48 (MQ=255)                                                                                                                                                                              ccacgtgaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtcggganatanatggncanagccaCCACAATTGANCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATANNCNNNANAACCgtgt                                                                                                                                                                    >  2:222703‑M1/78‑148 (MQ=255)                                                                                                                                                                              ccacgggaatatctgcggcagcgggcttgtaatgggttaagtgataacagatgtctggaaatataggggcaaatccaCAACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCgtgt                                                                                                                                                                    <  1:222703‑M1/71‑1 (MQ=255)                                                                                                                                                                                     cGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAtagactggccccctgaatctccagacaaccaatatcacttaaataagtgatagtc                                                                                                                                                                               >  1:25379‑M1/1‑75 (MQ=255)                                                                                                                                                                                     cGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGAAAATTATAGGCGATGTCACACAtagcctggccccctgaatctccagacaaccaatatcacttaaatcagtgatagtcttcatactagtttttagactagtcattggagaacagatgattgatgtcttagggccggagaaacgcagacggcgtaccacacaggaaaagatcgcaattgttcagcagagctttgaaccgg                                                      >  1:47763‑M1/1‑75 (MQ=255)                                                                                                                                                                                     cGAATAGCGTCAGTGGTGTTAGGCACGGCATTG‑ATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAtagactggccccctgaatctccagacaaccaatatcacttaaataagtgatagtcttaatactag                                                                                                                                                                     <  1:2933‑M1/139‑66 (MQ=255)                                                                                                                                                                                             gTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAtcgactggccccctgaatctccagacaaccaatatcacttaaataagtgatagtcttaatactagtttttagactagtcattggagaacagatgattgatgtcttagggccg                                                                                                                      >  1:118799‑M1/1‑67 (MQ=255)                                                                                                                                                                                                      tnnngnnccnnnngnnnnnnnnagnnntgataangnnaattanagGNGATGTCCCACAtagactggccccctgaatctccagacaaccaatatcacgtaaataagtgatagtcttaatactagtttttagactagtcattggagaacagatgnttgntgtcntanggccggagaaacgcanacggcgtaccacacaggaaaagatcgcaattgttcagcagagctnngnnncngggatgac                                               <  2:228347‑M1/219‑184 (MQ=255)                                                                                                                                                                                                      gtTAGGCACGGCATTGAATGACAGGCATGATAATGCAAATTATAGGCGATGTACCACAtagactggcccccagaatctacagacaacccatatcacttaaataagtgatagtcttaatactagtttttagactagccattggagaacagatgattgatgtcttagggccggagaaccgcagacggcgtaccacacaggaaaagatcgccattgttcagcagagatttgcaccggggatgac                                               >  1:228347‑M1/1‑58 (MQ=255)                                                                                                                                                                                                          ggCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAtagactggccccctgaatctccagacaaccaatatcacttaaataagtgatagtcttaatactagtttttagactagtcattggagaacagatgattgatgtcttagggccggagaaacgcagacggcgtaccacacaggaaaagatcgcaattgttcagcagagctttgaaccggggatg                                                 >  1:103873‑M1/1‑54 (MQ=255)                                                                                                                                                                                                                    tNNATGACANNTATGATAATGCAAATTATAGGCGATGTCCCACAtagactggccccctgaatctccagacaaccaatatcacttaaataagtgatagtc                                                                                                                                                                               <  2:25379‑M1/99‑56 (MQ=255)                                                                                                                                                                                                                          aCAGGTATGATAATGCAAATTATAGGCGATGTCCCACAtagactggccccctgaatctccagacaaccaatatcacttaaataagtgatagtcttaatactagtttttagactagtcattggagaacagatgattgatgtcttagggccggagaaacgcagacggcgtaccacacaggaaaagatcgcaattgttcagcagagctttgaaccggggatgacggtctccctcgttgcccggcaacatggtgt                 >  1:297155‑M1/1‑38 (MQ=255)                                                                                                                                                                                                                                 tGATAATGCAAATTATAGGCGATGTCCCACAtagactggcaacctgaatctcacgacacccaatatcaattaaataagtgatagtcttaatactagtttttagactagtcattgcagaacagctgattgatgtattaggg                                                                                                                         >  1:300855‑M1/1‑31 (MQ=255)                                                                                                                                                                                                                                      ggaaatataggggcaaatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCGTGTGTCGATTTGGGGAATATATGCAGTATTGGGGAAAAATCATTGGCGTGGCCGTGGCCTTACTGATGGGCGGCGGCTTTTGGGGCGTAGTGTTAGGCCTGTTAATTGGCCATATGTTTGATAAAGCCCGTAGCCGTAAAATGGCGTGGTTCGCCAACcan      >  1:83133‑M1/22‑249 (MQ=255)                                                                                                                                                                                                                                         cAAATTATTGGCGATTTCCCACAtagactggccccctgaatctccagacaaccaatatctattaaataagtgatagtcttaatactagtttttagactagtcattggagaacagatgattgatgtcttatggccggataaacgcagacggagtaccacacatgaaaagatctcagttgttcagcagatcttggaaccgggtatgacggtgtccctcgttgcccggcaacatggtgtagcagccagccagtt  <  1:242250‑M1/251‑229 (MQ=255)                                                                                                                                                                                                                                                gggcaaatccaCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCGTGTGTCGATTTggng                                                                                                                                                        >  1:255814‑M1/12‑94 (MQ=255)                                                                                                                                                                                                                                                         caCCACAATTGACCGCCGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATCGCCCTGATATCCGTGTGTCGATTTGGGGAATATCTGCAGTATTGGGGAAAAATCATTGGCGTGGCCGTGGCCTTACTGATGGGCGGCGGCTTTAGGGGCGTAGTGTTAGGCCTGTTAATTGGCCATATGTTTGATAAAGCCCg                                     <  1:43897‑M1/198‑1 (MQ=255)                                                                                                                                                                                                                                                          nccaCAtagactggccccctgaatctccagacaaccaatatcacttaaataagtgatagtcttaatactagtttttagactagtcattggagaacagatgattgatgtcttagggccggagaaacgcagacggcgtaccacacaggaaaagatcg                                                                                 >  1:61140‑M1/2‑6 (MQ=255)                                                                                                                                                                                                                                                          aCCACNNTTNNNCGNNGCCGGAAAACGGTAAAAGCACCTNTATATTGTGGGAGATAGACCTGATATCCGNGNGNCGATNNGGGNAATATATGCCNTATTGGGGAAAAATCATTGGCGTGGCCGTGGCCTTTCTGATGGGAGGGNGNTTTTGGGGCGTAGTGTTAGGCCTGGTAATTGNCCATATGTTTGATAAAGCCCGTagn                                 <  2:237550‑M1/202‑2 (MQ=255)                                                                                                                                                                                                                                                          aCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCGTGTTTCGATTTGGGGAATATATGCAGTATTGGGGAAAAAGCATTGGCGTGGCCGGTGCCTTACTGATGGGCGGCGGCTTTTGGGTCGTAGTGTTAGGCCTGTTAATTGGCCATATGTTTGATAAAGCCCGTAGc                                 >  1:237550‑M1/2‑203 (MQ=255)                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                         GGCGAGGTCGGCTGCCAGTCCCTGTTGACTATAAAGGGCGGTGGCAATCATGGTGGCCAGGAGAGTGGGGATACGTTTTTTCATACGTTGATTTTATTGTTCCATCATCGGTAACGTTGCGCGTGACAAACGGTCAGAGACTAACGTACTCGTCATCTCTACGCTAGTGTTAATCCTGTCCGAATAGCGTCAGTGGTGTTAGGCACGGCATTGAATGACAGGTATGATAATGCAAATTATAGGCGATGTCCCACAATTGACCGCAGCCGGAAAACGGTAAAAGCACCTTTATATTGTGGGAGATAGCCCTGATATCCGTGTGTCGATTTGGGGAATATATGCAGTATTGGGGAAAAATCATTGGCGTGGCCGTGGCCTTACTGATGGGCGGCGGCTTTTGGGGCGTAGTGTTAGGCCTGTTAATTGGCCATATGTTTGATAAAGCCCGTAGCCGTAAAATGGCGTGGTTCGCCAACCAGCGTG  >  NC_000913/57026‑57508

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ 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.