Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A9 F1 I2 R1	760	52.7	2744488	90.2%	2475528	105.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,468,106	T→C	A84A (GCT→GCC)	gtrA →	CPS‑53 (KpLE1) prophage, bactoprenol‑linked glucose translocase/flippase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,468,106	0	T	C	100.0%	186.0 / NA	52	A84A (GCT→GCC)	gtrA	CPS‑53 (KpLE1) prophage, bactoprenol‑linked glucose translocase/flippase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (22/30); total (22/30)

CGCAGGTTTCGTTGTGGCTGTGAGCTTTAGCTTCTTCGCGAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCTGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGATATCTCTTGTAGTTC  >  NC_000913/2467971‑2468235

cGCAGGTTTCGTTGTGGCTGTGAGCTTTAGCTTCTTCGCGAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGgccgct                                                                                                                                >  2:111848/1‑139 (MQ=255)

  cAGGTTTCGTTGTGGCTTTGAGCTTTAGCTTCTTCGCGAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGa                                                                                                                              <  1:1166873/139‑1 (MQ=255)

   aGGTTTCGTTGTGGCTGTGAGCTTTAGCTTCTTCGCGAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGAt                                                                                                                             <  1:35392/139‑1 (MQ=255)

     gTTTCGTTGTGGCTGTGAGCTTTAGCTTCTTCGCGAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAg                                                                                                                           <  1:323407/139‑1 (MQ=255)

          gTTGTGGCTGTGAGCTTTAGCTTCTTCGCGAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATgcg                                                                                                                      >  1:618441/1‑139 (MQ=255)

              tgGCTGTGAGCTTTAGCTTCTTCGCGAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACt                                                                                                                  <  2:355130/139‑1 (MQ=255)

                               ttcttcGCGAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAActc                                                                                                 <  2:1181949/139‑1 (MQ=255)

                                       gAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCAcc                                                                                         <  1:364897/139‑1 (MQ=255)

                                            cAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTtctc                                                                                    <  2:204519/139‑1 (MQ=255)

                                                       ttCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGcc                                                                         <  2:932805/139‑1 (MQ=255)

                                                                             tGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTc                                                   >  2:1088353/1‑139 (MQ=255)

                                                                              gcgcTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCa                                                  >  1:1116217/1‑139 (MQ=255)

                                                                                  tACATGCTATATGTTGGGTTCATGGGGACACTGAGTTCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTccccc                                                                                                            <  1:116479/77‑1 (MQ=255)

                                                                                  tACATGCTATATGTTGGGTTCATGGGGACACTGAGTTCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTccccc                                                                                                            >  2:116479/1‑77 (MQ=255)

                                                                                     aTGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCa                                           <  1:111848/139‑1 (MQ=255)

                                                                                       gCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCAtt                                         <  2:1116217/139‑1 (MQ=255)

                                                                                            atGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCa                                           <  2:1303355/132‑1 (MQ=255)

                                                                                            atGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCa                                           >  1:1303355/1‑132 (MQ=255)

                                                                                              gTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTa                                  <  2:526500/139‑1 (MQ=255)

                                                                                              gTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTa                                  >  1:1172844/1‑139 (MQ=255)

                                                                                                tGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAgg                                >  2:541975/1‑139 (MQ=255)

                                                                                                 gggTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGCTGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAggg                               >  1:372174/1‑139 (MQ=255)

                                                                                                  ggTTCATGGGTACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGgtgt                                                                   >  1:947567/1‑102 (MQ=255)

                                                                                                  ggTTCATGGGTACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGgtgt                                                                   <  2:947567/102‑1 (MQ=255)

                                                                                                   gTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAg                                                                                                                           >  1:385705/1‑45 (MQ=255)

                                                                                                   gTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAg                                                                                                                           <  2:385705/45‑1 (MQ=255)

                                                                                                   gTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGAt                             >  2:1328174/1‑139 (MQ=255)

                                                                                                    ttCATGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATg                            <  2:618441/139‑1 (MQ=255)

                                                                                                       aTGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATaa                                                                                                    >  1:728332/1‑64 (MQ=255)

                                                                                                       aTGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATaa                                                                                                    <  2:728332/64‑1 (MQ=255)

                                                                                                       aTGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTg                                                                       >  1:84133/1‑93 (MQ=255)

                                                                                                       aTGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTg                                                                       <  2:84133/93‑1 (MQ=255)

                                                                                                       aTGGGGACACTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGa                         >  2:678811/1‑139 (MQ=255)

                                                                                                              cacTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCa                                                                                                                    <  1:778453/41‑1 (MQ=255)

                                                                                                              cacTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCa                                                                                                                    >  2:778453/1‑41 (MQ=255)

                                                                                                                cTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCAtt                                         >  2:1197318/1‑114 (MQ=255)

                                                                                                                cTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCAtt                                         <  1:1197318/114‑1 (MQ=255)

                                                                                                                cTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGat                <  1:1088353/139‑1 (MQ=255)

                                                                                                                cTGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGat                <  1:1328174/139‑1 (MQ=255)

                                                                                                                 tGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCgatgat                                                                                                      >  2:1270574/1‑52 (MQ=255)

                                                                                                                 tGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCgatgat                                                                                                      <  1:1270574/52‑1 (MQ=255)

                                                                                                                 tGAGTGCTACTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCTATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGata               >  2:370445/1‑139 (MQ=255)

                                                                                                                         aCTGTTGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGATATCTCTTGt       >  2:1214198/1‑139 (MQ=255)

                                                                                                                             ttGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGATAtct            >  1:778050/1‑130 (MQ=255)

                                                                                                                             ttGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGATAtct            <  2:778050/130‑1 (MQ=255)

                                                                                                                              tGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGATATCTCTTGTAGTTc  <  2:1018498/139‑1 (MQ=255)

                                                                                                                              tGGATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGATATCTCTTGTAGTTc  <  1:553504/139‑1 (MQ=255)

                                                                                                                               ggATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCa                                           <  1:1159356/97‑1 (MQ=255)

                                                                                                                               ggATGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCa                                           >  2:1159356/1‑97 (MQ=255)

                                                                                                                                  tGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCt                                                       <  2:154503/82‑1 (MQ=255)

                                                                                                                                  tGGGCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCt                                                       >  1:154503/1‑82 (MQ=255)

                                                                                                                                    ggCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGc                                                                                 <  2:70430/54‑1 (MQ=255)

                                                                                                                                    ggCCGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCAtt                                         <  1:153625/94‑1 (MQ=255)

CGCAGGTTTCGTTGTGGCTGTGAGCTTTAGCTTCTTCGCGAATGCAAAATTCACATTCAAGGCATCGACTACAACGATGCGCTACATGCTATATGTTGGGTTCATGGGGACACTGAGTGCTACTGTTGGATGGGCTGCTGATAGATGCGCACTTCCCCCGATGATAACTCTTGTCACCTTCTCCGCCATCAGCCTGGTGTGCGGTTTCGTCTATTCAAAGTTCATTGTCTTTAGGGATGCGAAATGAAGATATCTCTTGTAGTTC  >  NC_000913/2467971‑2468235

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A