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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,510,188	A→G	intergenic (+55/+502)	yjhV → / ← fecE	pseudogene, KpLE2 phage‑like element/ferric citrate ABC transporter ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,510,188	0	A	G	100.0%	196.1 / NA	56	intergenic (+55/+502)	yjhV/fecE	pseudogene, KpLE2 phage‑like element/ferric citrate ABC transporter ATPase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (29/27); total (29/27)

TGAGACACCGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTC  >  NC_000913/4510073‑4510316

tGAGACACCGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCa                                                                                                           <  2:1294278/139‑1 (MQ=255)

        cGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTAAGAAACTgg                                                                                                   >  2:1121186/1‑139 (MQ=255)

                                  aaTCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCt                                                                         >  1:592415/1‑139 (MQ=255)

                                       aTCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGa                                                                    >  2:1443064/1‑139 (MQ=255)

                                       aTCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGa                                                                    >  2:1299767/1‑139 (MQ=255)

                                        tCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGAt                                                                   <  1:1299767/139‑1 (MQ=255)

                                         ccATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGAtt                                                                  >  1:1102015/1‑139 (MQ=255)

                                                    ccTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGt                                                       <  1:485725/139‑1 (MQ=255)

                                                      tGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGATTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCt                                                     <  2:1102015/139‑1 (MQ=255)

                                                       gTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTg                                                    <  1:1443064/139‑1 (MQ=255)

                                                           aaCGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCa                                                <  1:1121186/139‑1 (MQ=255)

                                                           aaCGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCa                                                <  2:702554/139‑1 (MQ=255)

                                                           aaCGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCa                                                <  2:1233703/139‑1 (MQ=255)

                                                             cGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCt                                                     <  2:732480/132‑1 (MQ=255)

                                                             cGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCt                                                     >  1:732480/1‑132 (MQ=255)

                                                             cGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCAtt                                              >  2:447112/1‑139 (MQ=255)

                                                              gTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGt                                                                             >  2:1272083/1‑107 (MQ=255)

                                                              gTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGt                                                                             <  1:1272083/107‑1 (MQ=255)

                                                               tGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGaaa                                                                                                       >  1:450087/1‑80 (MQ=255)

                                                               tGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGaaa                                                                                                       <  2:450087/80‑1 (MQ=255)

                                                               tGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGa                                            >  1:663599/1‑139 (MQ=255)

                                                                  cTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGaaa                                                                                                       <  1:301431/77‑1 (MQ=255)

                                                                  cTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGaaa                                                                                                       >  2:301431/1‑77 (MQ=255)

                                                                  cTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGAttt                                         >  2:700879/1‑139 (MQ=255)

                                                                  cTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGAttt                                         >  2:23391/1‑139 (MQ=255)

                                                                  cTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGAttt                                         >  2:942188/1‑139 (MQ=255)

                                                                  cTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGAttt                                         >  1:1383115/1‑139 (MQ=255)

                                                                  cTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTAGCTTTTGATTTACGTTGGCGTCTGATCATTGAttt                                         >  1:927632/1‑139 (MQ=255)

                                                                       ggTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCt                                    >  1:577439/1‑139 (MQ=255)

                                                                         tGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCa                                  <  2:577439/139‑1 (MQ=255)

                                                                                gAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGccc                           <  1:447112/139‑1 (MQ=255)

                                                                                 aaaGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCa                          <  2:592415/139‑1 (MQ=255)

                                                                                  aaGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCg                                                                                      <  2:794899/78‑1 (MQ=255)

                                                                                  aaGCTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCg                                                                                      >  1:794899/1‑78 (MQ=255)

                                                                                     ccgCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAg                              >  2:1278707/3‑131 (MQ=255)

                                                                                     ccgCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAg                              <  1:1278707/129‑1 (MQ=255)

                                                                                     cTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAg                                                                                              >  2:1153580/1‑67 (MQ=255)

                                                                                     cTGCACCTACCTAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAg                                                                                              <  1:1153580/67‑1 (MQ=255)

                                                                                         acctacctAAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCAtt                  <  1:23391/139‑1 (MQ=255)

                                                                                             acctaAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGt                                                       >  2:679968/1‑98 (MQ=255)

                                                                                             acctaAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGt                                                       <  1:679968/98‑1 (MQ=255)

                                                                                               ctaAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCa                                  >  1:202294/1‑117 (MQ=255)

                                                                                               ctaAGTAGTAGCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCa                                  <  2:202294/117‑1 (MQ=255)

                                                                                                    tagtagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAAcc       >  2:82302/1‑139 (MQ=255)

                                                                                                      gtagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAg     <  2:927632/139‑1 (MQ=255)

                                                                                                       tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGa                                                                                                  <  2:1396706/45‑1 (MQ=255)

                                                                                                       tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGa                                                                                                  >  1:1396706/1‑45 (MQ=255)

                                                                                                       tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGt                                                       <  2:464094/88‑1 (MQ=255)

                                                                                                       tagCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGt                                                       >  1:464094/1‑88 (MQ=255)

                                                                                                       tagCAAACGCACGCTTGTTAGAAAAATCGATGTTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATTAACCAGc    >  2:573038/1‑139 (MQ=255)

                                                                                                        agCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGc                                                                                             >  1:298648/1‑49 (MQ=255)

                                                                                                        agCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGc                                                                                             <  2:298648/49‑1 (MQ=255)

                                                                                                        agCAAACGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCt   <  1:942188/139‑1 (MQ=255)

                                                                                                         gCAAACGCACGCTTTTTAGAAAAAGCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTc  >  2:1042135/1‑139 (MQ=255)

                                                                                                            aaCGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAAc        <  1:1219951/130‑1 (MQ=255)

                                                                                                            aaCGCACGCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAAc        >  2:1219951/1‑130 (MQ=255)

TGAGACACCGACTCATGAAGATATCATTGATAACAATCGATCCATCAACTGGCCTGTATAACGTGGCTGCCGGTGATTAAGAAAGCTGCACCTACCTAAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTC  >  NC_000913/4510073‑4510316

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A