Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	1,394,106	Δ1,938 bp	IS5‑mediated	[mppA]–ynaI	[mppA], ynaI

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	1394106	1397224–1396040	1935–3119	68 [3]	[24] 27	[mppA]–insH1	[mppA], ynaI, insH1

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1394105	3 (0.050)	65 (1.010)	49/198	0.3	95.6%	coding (879/1614 nt)	mppA	murein tripeptide (L‑ala‑gamma‑D‑glutamyl‑meso‑DAP) transporter subunit
	?	NC_000913	1396044 =	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region

ATATTGATATCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATTATTATGCGTTTAACACGCAAAAAGGGCCGACGGCAGATCAGCGCGTTCGTCTGGCATTAAGTATGACGATAGATCGCCGCCTGATGACCGAAAAAGTA  >  NC_000913/1394008‑1394204                                                                                                  |                                                                                                    atatTGATATCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATgg                                                                                                   <  2:557896‑M1/100‑3 (MQ=255)  tatTGATATCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATgga                                                                                                  <  1:1084647‑M1/100‑4 (MQ=255)  tatTGATATCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATgga                                                                                                  >  1:1397517‑M1/1‑97 (MQ=255)   atTGATATCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaa                                                                                                 >  1:957023‑M1/1‑96 (MQ=255)    ttGATATCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATgga                                                                                                  >  2:307172‑M1/1‑95 (MQ=255)      gATATCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaagg                                                                                               >  1:1328812‑M1/1‑93 (MQ=255)       atatCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtg                                                                                             >  1:603764‑M1/1‑92 (MQ=255)       atatCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATTATTATGc                                                                                             >  2:1060696/1‑100 (MQ=255)        tatCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgc                                                                                            <  1:1083078‑M1/100‑10 (MQ=255)         atCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcg                                                                                           <  1:1434714‑M1/100‑11 (MQ=255)          tCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcga                                                                                          >  2:1075298‑M1/1‑89 (MQ=255)          tCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcga                                                                                          >  2:1113012‑M1/1‑89 (MQ=255)           cACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaa                                                                                         >  2:1545348‑M1/1‑88 (MQ=255)            aCCGGATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaac                                                                                        >  1:521826‑M1/1‑87 (MQ=255)               gAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaag                                                                                     <  2:658518‑M1/100‑17 (MQ=255)                   ccTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccc                                                                                 <  2:624647‑M1/100‑21 (MQ=255)                    cTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccct                                                                                >  1:297049‑M1/1‑79 (MQ=255)                       cccGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgat                                                                             <  1:1251513‑M1/100‑25 (MQ=255)                       cccGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgat                                                                             <  2:120703‑M1/100‑25 (MQ=255)                        ccGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgata                                                                            >  1:986673‑M1/1‑75 (MQ=255)                         cGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatat                                                                           >  1:1194121‑M1/1‑74 (MQ=255)                         cGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATTATTATGCGTTTAACACGCAAAAAgg                                                                           <  2:153205/100‑1 (MQ=255)                          gAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatg                                                                          >  2:204300‑M1/1‑73 (MQ=255)                            aaaaTATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgag                                                                        <  1:637478‑M1/100‑30 (MQ=255)                              aaTATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagan                                                                      <  2:1261103‑M1/100‑32 (MQ=255)                               atatGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatc                                                                     <  1:556231‑M1/100‑33 (MQ=255)                                tatGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatca                                                                    <  2:814222‑M1/100‑34 (MQ=255)                                  tGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatg                                                                  <  2:1335714‑M1/100‑36 (MQ=255)                                     aTCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgttt                                                               >  1:381238‑M1/1‑62 (MQ=255)                                     aTCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgttt                                                               <  2:118852‑M1/100‑39 (MQ=255)                                     aTCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgttt                                                               >  1:1241743‑M1/1‑62 (MQ=255)                                      tCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttg                                                              <  1:892002‑M1/100‑40 (MQ=255)                                      tCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttg                                                              <  1:871672‑M1/100‑40 (MQ=255)                                           aGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcat                                                          >  1:930208‑M1/1‑56 (MQ=255)                                           aGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATTATTATGCGTTTAACACGCAAAAAGGGCCGACGGCAGATCAgcg                                                         <  2:497245/100‑1 (MQ=255)                                             cTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctg                                                       <  1:228212‑M1/100‑47 (MQ=255)                                             cTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctg                                                       <  2:141761‑M1/100‑47 (MQ=255)                                                 tGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagc                                                   <  2:955309‑M1/100‑51 (MQ=255)                                                 tGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagc                                                   >  1:380485‑M1/1‑50 (MQ=255)                                                  gAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagcc                                                  >  1:586660‑M1/1‑49 (MQ=255)                                                  gAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagca                                                  >  1:955314‑M1/1‑49 (MQ=255)                                                   aaGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagcca                                                 >  2:1270444‑M1/1‑48 (MQ=255)                                                    aGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccat                                                >  1:346106‑M1/1‑47 (MQ=255)                                                      gATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatag                                              <  2:297184‑M1/100‑56 (MQ=255)                                                      gATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatag                                              <  2:398952‑M1/100‑56 (MQ=255)                                                      gATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatag                                              <  1:101690‑M1/100‑56 (MQ=255)                                                      gATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatag                                              <  1:497586‑M1/100‑56 (MQ=255)                                                         atTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaac                                           <  1:1201811‑M1/100‑59 (MQ=255)                                                         atTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaac                                           <  2:521825‑M1/100‑59 (MQ=255)                                                           tCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacag                                         <  1:1383313‑M1/100‑61 (MQ=255)                                                           tCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacag                                         <  1:1416870‑M1/100‑61 (MQ=255)                                                            ccGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagg                                        >  1:1007861‑M1/1‑39 (MQ=255)                                                            ccGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagg                                        >  2:312803‑M1/1‑39 (MQ=255)                                                             cGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacaggg                                       >  1:64343‑M1/1‑38 (MQ=255)                                                                ggCAGGTTTATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttc                                    <  2:1366381‑M1/100‑66 (MQ=255)                                                                       ttATACGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatga                             >  1:1305619‑M1/1‑28 (MQ=255)                                                                        tataCGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgag                            <  2:298553‑M1/100‑74 (MQ=255)                                                                           aCGCCGCCGCAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatcaggagccatagaacagggttcatcatgagtca                         >  2:787833‑M1/1‑24 (MQ=255)                                                                               cgccgcAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaa                     <  1:967590‑M1/100‑81 (MQ=255)                                                                                  cgcAGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaactt                  <  2:346106‑M1/100‑84 (MQ=255)                                                                                    cAGCTCGGGACATATggaaggtgcgaacaagtccctgagatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatca                      <  2:1449210‑M1/94‑80 (MQ=255)                                                                                     aGCTCGGGACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttacc               >  2:544147‑M1/1‑14 (MQ=255)                                                                                           ggACCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgcc         <  2:1022044‑M1/100‑93 (MQ=255)                                                                                             aCCTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccga       <  2:681511‑M1/100‑95 (MQ=255)                                                                                              ccTATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgac      >  2:1244092‑M1/1‑5 (MQ=255)                                                                                                tATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgacag    >  1:1541928‑M1/1‑3 (MQ=255)                                                                                                tATggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgacag    >  2:682406‑M1/1‑3 (MQ=255)                                                                                                  tggaaggtgcgaacaagtccctgatatgagatcatgtttgtcatctggagccatagaacagggttcatcatgagtcatcaacttaccttcgccgacagtg  <  2:101117‑M1/100‑100 (MQ=255)                                                                                                  |                                                                                                    ATATTGATATCACCGAATCCTTCCCGAAAAATATGTATCAGAAGCTGTTGAAGGATATTCCGGGGCAGGTTTATACGCCGCCGCAGCTCGGGACCTATTATTATGCGTTTAACACGCAAAAAGGGCCGACGGCAGATCAGCGCGTTCGTCTGGCATTAAGTATGACGATAGATCGCCGCCTGATGACCGAAAAAGTA  >  NC_000913/1394008‑1394204

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑