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	4,504,006	G→A	intergenic (‑575/‑52)	insG ← / → yjhB	IS4 transposase/putative MFS transporter, membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,504,006	0	G	A	100.0%	167.6 / NA	52	intergenic (‑575/‑52)	insG/yjhB	IS4 transposase/putative MFS transporter, membrane protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (27/25); total (27/25)

TATCTTTCATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGGCTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGATATGTATTTGA  >  NC_000913/4503880‑4504137

tATCTTTCATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATAtt                                                                                                                         >  2:477928/1‑139 (MQ=255)

 aTCTTTCATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACt                                                                                                                                   <  1:1301166/128‑1 (MQ=255)

           gagTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATGGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAggg                                                                                                              <  1:157403/139‑1 (MQ=255)

            agTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGc                                                                                                             <  1:143501/139‑1 (MQ=255)

                 aaTATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTatat                                                                                                        >  1:1016988/1‑139 (MQ=255)

                      gTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGaa                                                                                                   >  2:563111/1‑139 (MQ=255)

                          agaagaAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAggg                                                                                                              <  2:1017926/124‑1 (MQ=255)

                          agaagaAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAggg                                                                                                              >  1:1017926/1‑124 (MQ=255)

                                 aTGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGaa                                                                                        >  2:1075504/1‑139 (MQ=255)

                                            gATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGc                                                                             <  1:477928/139‑1 (MQ=255)

                                                gTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACa                                                                         >  1:1249298/1‑139 (MQ=255)

                                                 tACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTa                                                                                                                  >  1:1302326/1‑97 (MQ=255)

                                                 tACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTa                                                                                                                  <  2:1302326/97‑1 (MQ=255)

                                                 tACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGTCAACAg                                                                        >  2:439519/1‑139 (MQ=255)

                                                   cTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCa                                                                      <  2:545945/139‑1 (MQ=255)

                                                      aTTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTcc                                                                                                                                 >  2:1046821/1‑77 (MQ=255)

                                                      aTTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTcc                                                                                                                                 <  1:1046821/77‑1 (MQ=255)

                                                                gATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAatat                                                                                <  1:562645/116‑1 (MQ=255)

                                                                gATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAatat                                                                                >  2:562645/1‑116 (MQ=255)

                                                                    aCAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTcc                                                                                                                                 >  2:123359/1‑63 (MQ=255)

                                                                    aCAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTcc                                                                                                                                 <  1:123359/63‑1 (MQ=255)

                                                                     caatcaatAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATAtt                                                                                                                         <  1:632158/70‑1 (MQ=255)

                                                                     caatcaatAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATAtt                                                                                                                         >  2:632158/1‑70 (MQ=255)

                                                                     caatcaatAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATaaa                                                             <  1:1035902/130‑1 (MQ=255)

                                                                     caatcaatAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATaaa                                                             >  2:1035902/1‑130 (MQ=255)

                                                                              gTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACaa                                           <  1:1075504/139‑1 (MQ=255)

                                                                               tACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAAc                                          >  2:1121272/1‑139 (MQ=255)

                                                                                  tGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGa                                       >  1:466684/1‑139 (MQ=255)

                                                                                    gCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCa                                                                      >  1:593156/1‑106 (MQ=255)

                                                                                    gCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCa                                                                      <  2:593156/106‑1 (MQ=255)

                                                                                    gCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGaaa                                     >  2:1058150/1‑139 (MQ=255)

                                                                                    gCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGaaa                                     >  2:718484/1‑139 (MQ=255)

                                                                                         tttGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATaaa                                                             <  2:300613/110‑1 (MQ=255)

                                                                                         tttGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATaaa                                                             >  1:300613/1‑110 (MQ=255)

                                                                                         tttGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGaaa                                     >  2:328521/1‑134 (MQ=255)

                                                                                         tttGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGaaa                                     <  1:328521/134‑1 (MQ=255)

                                                                                         tttGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGctct                                >  1:422607/1‑139 (MQ=255)

                                                                                              aGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCtttttt                           >  2:515645/1‑139 (MQ=255)

                                                                                                 cAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCg                        <  1:1058150/139‑1 (MQ=255)

                                                                                                    tataATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGaaa                                     <  2:1013488/123‑1 (MQ=255)

                                                                                                    tataATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGaaa                                     >  1:1013488/1‑123 (MQ=255)

                                                                                                    tataATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCAt                     >  2:745234/1‑139 (MQ=255)

                                                                                                    tataATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCAt                     >  1:445466/1‑139 (MQ=255)

                                                                                                     ataATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATg                    <  2:1016988/139‑1 (MQ=255)

                                                                                                        attattTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCt                 <  2:1249298/139‑1 (MQ=255)

                                                                                                        attattTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCt                 <  2:445466/139‑1 (MQ=255)

                                                                                                           attTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTgg              <  2:42275/139‑1 (MQ=255)

                                                                                                             ttCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGCATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGat            <  2:866929/139‑1 (MQ=255)

                                                                                                             ttCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGat            <  1:563111/139‑1 (MQ=255)

                                                                                                              tCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGata           >  2:855625/1‑139 (MQ=255)

                                                                                                                      ttgttgAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGATATGTATTTg   <  1:718484/139‑1 (MQ=255)

                                                                                                                       tgttgAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGATATGTATTTGa  >  2:599152/1‑139 (MQ=255)

TATCTTTCATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGGCTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGATATGTATTTGA  >  NC_000913/4503880‑4504137

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