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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,343,891	A→G	D171G (GAC→GGC)	lptA →	lipopolysaccharide export ABC transporter periplasmic binding protein, Lipid A binding protein, LPS export and assembly protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,343,891	0	A	G	100.0%	192.1 / NA	54	D171G (GAC→GGC)	lptA	lipopolysaccharide export ABC transporter periplasmic binding protein, Lipid A binding protein, LPS export and assembly protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (25/29); total (25/29)

ATGCTTATCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGACAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAGCCTGACCGT  >  NC_000913/3343756‑3344020

aTGCTTATCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCaa                                                                                                                                <  2:220345/139‑1 (MQ=255)

   cTTATCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCaaaaa                                                                                                                             >  2:808995/1‑139 (MQ=255)

      aTCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAaacaa                                                                                                                          >  1:471365/1‑139 (MQ=255)

        cTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAacaaca                                                                                                                        <  2:449186/139‑1 (MQ=255)

           cagcagGTCGATAGCAACATTAAGGGCGATAAGATCACTTACATGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAg                                                                                                                     >  2:181555/1‑139 (MQ=255)

                 gTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGGAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGa                                                                                                               >  2:751788/1‑139 (MQ=255)

                 gTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGa                                                                                                               >  1:1041053/1‑139 (MQ=255)

                 gTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGa                                                                                                               >  1:480849/1‑139 (MQ=255)

                    gATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGAccc                                                                                                            <  2:1177538/139‑1 (MQ=255)

                        gCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGc                                                                                                        >  2:8519/1‑139 (MQ=255)

                         cAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       <  2:1130779/139‑1 (MQ=255)

                          aaCATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGcac                                                                                                      <  1:731771/139‑1 (MQ=255)

                               tAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaag                                                                                                 <  2:1047450/139‑1 (MQ=255)

                                       aTAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaag                                                                                                 <  1:100075/131‑1 (MQ=255)

                                       aTAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaag                                                                                                 >  2:100075/1‑131 (MQ=255)

                                           gATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGtaattaa                                                                                     <  2:1009089/139‑1 (MQ=255)

                                           gATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGtaattaa                                                                                     <  1:808995/139‑1 (MQ=255)

                                             tCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTaattaatt                                                                                   >  2:141421/1‑139 (MQ=255)

                                                      tGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGc                                                                          >  2:402513/1‑139 (MQ=255)

                                                              gagCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTaa                                                                  <  2:1041053/139‑1 (MQ=255)

                                                              gagCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTaa                                                                  <  1:8519/139‑1 (MQ=255)

                                                               agCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGc                                                                                                                   <  1:266518/89‑1 (MQ=255)

                                                               agCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGc                                                                                                                   >  2:266518/1‑89 (MQ=255)

                                                               agCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAAc                                                                 >  1:296088/1‑139 (MQ=255)

                                                                      aaTGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       <  1:1153151/94‑1 (MQ=255)

                                                                      aaTGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       >  2:1153151/1‑94 (MQ=255)

                                                                         gCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       <  1:880707/91‑1 (MQ=255)

                                                                         gCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGca                                                                                                       >  2:880707/1‑91 (MQ=255)

                                                                              cTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGG‑AATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCa                                                 <  2:246638/139‑1 (MQ=255)

                                                                               tttCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCa                                                 <  1:141421/139‑1 (MQ=255)

                                                                                 tCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCaaa                                               <  2:471365/139‑1 (MQ=255)

                                                                                       aCAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCa                                                 <  1:1023946/131‑1 (MQ=255)

                                                                                       aCAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCa                                                 >  2:1023946/1‑131 (MQ=255)

                                                                                       aCAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCta                                         >  1:1131043/1‑139 (MQ=255)

                                                                                                   gcgTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTcg                             <  2:480849/139‑1 (MQ=255)

                                                                                                   gcgTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTcg                             <  1:402513/139‑1 (MQ=255)

                                                                                                   gcgTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGATATGGCAACGTTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTcg                             <  1:751788/139‑1 (MQ=255)

                                                                                                    cctAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGTCCCCGTCACAAAAGACAGGTAATTAATTCGTTCTGGCAACATTAACTCCAAAGAACCTTTCAAAAGCCTATAAAGGCCCTcgc                            <  1:181555/137‑1 (MQ=255)

                                                                                                               ttCTGGTGCCGTCGCAGCTGCAGGGCAAAAacaaca                                                                                                                        <  1:951605/36‑1 (MQ=255)

                                                                                                               ttCTGGTGCCGTCGCAGCTGCAGGGCAAAAacaaca                                                                                                                        >  2:951605/1‑36 (MQ=255)

                                                                                                                tCTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGAc                <  2:296088/139‑1 (MQ=255)

                                                                                                                 cTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGtt                                                                               >  1:1195170/1‑75 (MQ=255)

                                                                                                                 cTGGTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGtt                                                                               <  2:1195170/75‑1 (MQ=255)

                                                                                                                    gTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaaga                                                                                                >  1:709160/1‑55 (MQ=255)

                                                                                                                    gTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACagaaga                                                                                                <  2:709160/55‑1 (MQ=255)

                                                                                                                    gTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACag                                                                                                    >  2:1128270/1‑51 (MQ=255)

                                                                                                                    gTGCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACag                                                                                                    <  1:1128270/51‑1 (MQ=255)

                                                                                                                    gTGCCGTCGCAGCTGCAGGGC‑AAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAg           >  1:921043/1‑139 (MQ=255)

                                                                                                                      gCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGtt                                                                               >  1:900388/1‑70 (MQ=255)

                                                                                                                      gCCGTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGtt                                                                               <  2:900388/70‑1 (MQ=255)

                                                                                                                         gTCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAGCCTg       >  1:1195301/1‑139 (MQ=255)

                                                                                                                          tCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAgaagaa                                                                                               <  1:939960/50‑1 (MQ=255)

                                                                                                                          tCGCAGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAgaagaa                                                                                               >  2:939960/1‑50 (MQ=255)

                                                                                                                              aGCTGCAGGGCAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAGCCTGACCGt  >  2:548544/1‑139 (MQ=255)

ATGCTTATCTGCAGCAGGTCGATAGCAACATTAAGGGCGATAAGATCACTTACCTGGTGAAAGAGCAGAAAATGCAGGCTTTCAGCGACAAAGGCAAGCGCGTAACAACCGTTCTGGTGCCGTCGCAGCTGCAGGACAAAAACAACAAAGGCCAGACCCCGGCACAGAAGAAGGGTAATTAATTCGTTATGGCAACATTAACTGCAAAGAACCTTGCAAAAGCCTATAAAGGCCGTCGCGTGGTAGAAGACGTCAGCCTGACCGT  >  NC_000913/3343756‑3344020

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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