Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	2,313,540	Δ2 bp :: IS186 (+) +6 bp	coding (53‑58/2673 nt)	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2313540 =	0 (0.000)	53 (0.930)	42/274	0.3	100%	coding (53/2673 nt)	rcsD	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
	?	NC_000913	= 2515617	NA (NA)					noncoding (1345/1345 nt)	IS186	repeat region
*	?	NC_000913	= 2313545	0 (0.000)	48 (0.830)	43/278	0.3	100%	coding (58/2673 nt)	rcsD	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
	?	NC_000913	2514275 =	NA (NA)					noncoding (3/1345 nt)	IS186	repeat region

TACAGGTGGCCATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACAAACTCCGCGACCACACTCAA  >  NC_000913/2515482‑2515759                                                                                                                                        |                                                                                                                                               tACAGGTGGCCATTCGTGGGACAGTATCCCGGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTcc                                                                                                                                         <  1:733814/143‑1 (MQ=21)   aaGGTTGCTATTCGCGGGTCTGTATCCCTGACAGCCTACAAAACGCAATGGAAGAACGCGAGGCATCGTCTTAACGTGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTcccc                                                                                                                                       <  2:86301/142‑1 (MQ=11)    aGGTGGCCATTGGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCg                                                                                                                                      <  1:337605/143‑1 (MQ=25)    aGGTGGCCATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCAAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCGTGAGATGGCTCAACCCTTAAGTTAAAGCGTATGGGATAGTTGCCCg                                                                                                                                      >  2:825689/1‑143 (MQ=11)          ccATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGttttt                                                                                                                                >  2:393631/1‑143 (MQ=39)           cATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGGAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGtttttt                                                                                                                               <  1:696158/143‑1 (MQ=255)               cGTGGGACAGTATCGCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACg                                                                                                                           <  2:125924/143‑1 (MQ=255)                 tGGGACAGTATCCCTGACAGCCTACACACCGCAATTGAACCACGCCATCCATCGTCTTAACGACACAACAAAACGACGCATACTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGGTTTTTTACGcc                                                                                                                         >  1:565053/1‑143 (MQ=14)                 tGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTCCAGATGGTTCAACCCTTAAGTTAGCGCTCCTGGGACAATTCCCCGATCTTTTTACGcc                                                                                                                         >  2:85809/1‑143 (MQ=14)                  gggACAGTATCCACGACAGCCTAAAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCt                                                                                                                        <  2:237989/143‑1 (MQ=255)                         tATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCATATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATc                                                                                                                 <  2:736616/143‑1 (MQ=255)                         tATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTCTTTTACGCCCGTTAATc                                                                                                                 >  2:356989/1‑143 (MQ=255)                         tATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGAGAATTCCCCGGTTTTTTTATGCCTGTTAATc                                                                                                                 >  2:540457/1‑143 (MQ=255)                           tCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAg                                                                                                               <  1:692898/143‑1 (MQ=255)                                  taGCCTTCCAGACGCAATTGGAGAGCGCGAGGCATCGGCTTAACGAGGCACCGAGGCGTCGCATTCTTCATATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATgg                                                                                                        <  2:535988/142‑1 (MQ=18)                                   aGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTCAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGc                                                                                                       >  2:378407/1‑143 (MQ=255)                                        aCAGAACGCAATGGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAATCCTTAAGTTAGCGCTGATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCgg                                                                                                  <  2:640801/143‑1 (MQ=255)                                          aaaaCGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTGATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGc                                                                                                >  1:574223/1‑143 (MQ=255)                                             aCGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGAc                                                                                             <  1:949598/143‑1 (MQ=255)                                               gCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTACTGGCTGCGGGCGACCa                                                                                           >  1:117854/1‑143 (MQ=255)                                                     gaagaaCGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCaaa                                                                                     <  1:737390/143‑1 (MQ=255)                                                        gagcgcgAGGCATGGTCGTAAGGGGGCACGGGGGCGGCGCCTTCTTCAGATGGTTCAAGCCTTAAGTTAGCGCTTATGGGATAAGTCCCCGGTTTGTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATAc                                                                                  <  2:135077/140‑1 (MQ=21)                                                        gaaCGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAAGACTTAGGTTAGCGCTTATGGGCTCATTCCCCGGCTCTTTCACGCCTGTTAAGCAGCTAATGGCGCCGGCGGACCAGTCCAGTAc                                                                                  >  2:51284/1‑143 (MQ=14)                                                        gaaCGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATCATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCTACCAATCtactac                                                                                  >  2:86368/1‑143 (MQ=255)                                                            gcgAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATCCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTCATGGCTGCGGGCGACCACTCACATAACCtt                                                                              >  1:901090/1‑143 (MQ=21)                                                             cgAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTGTTACGCCTGTGAATCAGATAATGGGTACGGGTGACCCTTCAAATACCCTTg                                                                             >  2:670091/1‑143 (MQ=18)                                                              gAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATGCTTCAGATGGTTCAACCCTTAAGTTCGCGAGTATGGGATACGTCCCCGGTCATTTTACACCTGTTAATCGGCTGATGGCTGCGGGCGAGCAAGCAAAGACTCTTGc                                                                            >  1:649566/1‑143 (MQ=18)                                                                    tCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGGTTTTGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAGATACCCTTGCAGatct                                                                      >  1:57034/1‑141 (MQ=255)                                                                    tCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTATATTACTCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGatat                                                                      <  1:725594/143‑1 (MQ=255)                                                                     cGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATAtt                                                                     >  1:670670/1‑143 (MQ=255)                                                                         ttAACGAAGAACGGTGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCAc                                                                 <  1:141254/143‑1 (MQ=255)                                                                              gAGGCACCTAGGCGTCACATTATTCAGATAGTTCAACCGTTAAGTTAGCGCTTATGGGATACTTCCCCGGTTTTTTTATGTCTGTTACTAACCTAATTTCTGCGGGCGCCCAATCCAATACACTTGCAGGCATTGCAccccca                                                            >  2:602747/1‑141 (MQ=16)                                                                                     ggtggCGCCGCATTCTTCAGATGGTTCAGCCCTTAAGTGAGCGGTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTGATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATg                                                     <  2:759612/140‑1 (MQ=255)                                                                                     cGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATg                                                     <  1:457420/143‑1 (MQ=255)                                                                                      gcgtcGTCCCACTCGTCAGATGTTTCAACCCTTAAGTTAGCGCTTATTGCATACTTCCCCGGTCTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGc                                                    <  2:551688/139‑1 (MQ=255)                                                                                            tCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAgc                                              >  1:825136/1‑143 (MQ=255)                                                                                                  tctccAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCctgc                                        <  2:454875/143‑1 (MQ=255)                                                                                                       aGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCctgctgctg                                   >  2:687106/1‑143 (MQ=255)                                                                                                       aGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCctgctgctg                                   >  1:633105/1‑143 (MQ=255)                                                                                                       aGATGGTTCAACCCTTAAGATAGCGCTTATGAGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGATAAAGGATGCGGACGACTAATCAAATACCCTTACAGATATTGAACACCTACGTAAGGCAATAGCGAatgctgctg                                   >  2:22701/1‑143 (MQ=255)                                                                                                        gATGGCTCACCCCTTAAGTTAGCGCCTATGGGATAATTCCCCGGTTTTTTTACGCCCGTTAATCAGCTAAGTGCTGCGGGCGCCCAATCAACTACCCTTGCAGATATCGCACCCCCAGCTTATGCAATAGCGCCTGCTGCTGt                                  <  1:902760/143‑1 (MQ=255)                                                                                                              tCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCACATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGtc                            >  2:792947/1‑143 (MQ=255)                                                                                                              tCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGtc                            >  2:324080/1‑143 (MQ=255)                                                                                                                aaCCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCTGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGtctc                          <  1:687106/143‑1 (MQ=255)                                                                                                                 gcccTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTGATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCg                         <  2:266214/142‑1 (MQ=255)                                                                                                                   ccctAAGTTAGCGCTTATGGGATAATTCCTCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGAc                       <  1:308339/140‑1 (MQ=255)                                                                                                                   ccTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTACTCAGCTAATGGCTACAGGTGACTGATCAGATACCCTAGCAGATATTGCACCCCGAGCTTCTGCCATAGCGCCTGCTGCTGTTGCCTCTCGaa                       >  2:424290/1‑142 (MQ=255)                                                                                                                      tAAGTGAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACaaa                    <  2:323626/143‑1 (MQ=255)                                                                                                                                 ttATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCCGATATTGCACCCCGAGCTTATGCAATCGCGCCGGCTGCTGTTGCGTCTCGGCGAACTACGCGACca         >  1:283400/1‑143 (MQ=255)                                                                                                                                    tGGGATAATTCCCCGGTTTTTTTACGCCTGTGAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACAAACTCCGCGACCacac      <  2:713540/143‑1 (MQ=255)                                                                                                                                     gggATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCCTTTTAATAGCGTTGCAGTTATTGCACCCCGAGCTTATGCAATAGCTCCTGCTCCTGTTGCTTCTCGACGAACTACGCCGCCACACt     >  2:403724/1‑143 (MQ=255)                                                                                                                                       gATAATTCCCCGGTTTTTTTACGCCTGGTAATCAGCTAATGGCTTCGTGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACAAACTCCGCGACCACACTCa   <  1:662002/143‑1 (MQ=255)                                                                                                                                        aTAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACAAACTACACGACCACACTCac  >  2:256073/1‑142 (MQ=255)                                                                                                                                        |                                                                                                                                               TACAGGTGGCCATTCGTGGGACAGTATCCCTGACAGCCTACAAAACGCAATTGAAGAACGCGAGGCATCGTCTTAACGAGGCACCGAGGCGTCGCATTCTTCAGATGGTTCAACCCTTAAGTTAGCGCTTATGGGATAATTCCCCGGTTTTTTTACGCCTGTTAATCAGCTAATGGCTGCGGGCGACCAATCAAATACCCTTGCAGATATTGCACCCCGAGCTTATGCAATAGCGCCTGCTGCTGTTGCGTCTCGACAAACTCCGCGACCACACTCAA  >  NC_000913/2515482‑2515759

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ 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.