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
A4 F28 I1 R1	128	54.7	1845674	99.3%	1832754	139.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,418,852	G→T	intergenic (+241/‑190)	yhdV → / → yhdW	lipoprotein YhdV/putative ABC transporter periplasmic binding protein YhdW

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,418,852	0	G	T	100.0%	160.8 / NA	46	intergenic (+241/‑190)	yhdV/yhdW	lipoprotein YhdV/putative ABC transporter periplasmic binding protein YhdW
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (21/25); total (21/25)

TTACATCGCGTTATTTCGCTGCTTTCGAAATAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGGCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCTTATAAGAGGATGGCCACAGA  >  NC_000913/3418717‑3418981

ttACATCGCGTTATTTCGCTGCTTTCGAAATAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCa                                                                                                                               >  2:423090/1‑140 (MQ=255)

     tCGCGTTATTTCGCTGCTTTCGAAATAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGttt                                                                                                                          <  2:370328/140‑1 (MQ=255)

      cgcgTTATTTCGCTGCTTTCGAAATAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTc                                                                                                                         <  1:895803/140‑1 (MQ=255)

      cgcgTTATTTCGCTGCTTTCGAAATAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTc                                                                                                                         >  2:543670/1‑140 (MQ=255)

        cgTTATTTCGCTGCTTTCGAAATAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCAt                                                                                                                       >  2:748094/1‑140 (MQ=255)

                     ctTTCGAAATAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTg                                                                                                          >  1:354908/1‑140 (MQ=255)

                        tCGAAATAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCgg                                                                                                       >  1:356690/1‑140 (MQ=255)

                            aaTAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGgcg                                                                                                   <  2:354908/140‑1 (MQ=255)

                            aaTAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGgcg                                                                                                   <  2:356690/140‑1 (MQ=255)

                             aTAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGgcgc                                                                                                  <  1:748094/140‑1 (MQ=255)

                               aaCGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTg                                                                                                >  2:58828/1‑140 (MQ=255)

                                 cGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCAtt                                                                                                           >  2:38502/1‑127 (MQ=255)

                                 cGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCAtt                                                                                                           <  1:38502/127‑1 (MQ=255)

                                         tttaatttTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTtattat                                                                                      >  1:563929/1‑140 (MQ=255)

                                           taatttTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTAttt                                                                                    <  1:521411/140‑1 (MQ=255)

                                           taatttTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTAttt                                                                                    <  2:10565/140‑1 (MQ=255)

                                             atttTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTAttt                                                                                    <  2:547398/138‑1 (MQ=255)

                                             atttTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTAttt                                                                                    >  1:547398/1‑138 (MQ=255)

                                                ttCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCTGGGCGCTGTTTTtattat                                                                                      >  2:34509/1‑133 (MQ=255)

                                                ttCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCTGGGCGCTGTTTTtattat                                                                                      <  1:34509/133‑1 (MQ=255)

                                                      cTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTacac                                                                         <  1:543670/140‑1 (MQ=255)

                                                       ttCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACt                                                                        <  2:585766/140‑1 (MQ=255)

                                                                 aaaTATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTg                                                              >  1:613510/1‑140 (MQ=255)

                                                                               tAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGt                                                >  2:398153/1‑140 (MQ=255)

                                                                                     tCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCaa                                          >  2:679935/1‑140 (MQ=255)

                                                                                       attattCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCaaaa                                        <  1:679935/140‑1 (MQ=255)

                                                                                         tattCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCACACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGc                                      >  2:383609/1‑140 (MQ=255)

                                                                                          attCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCt                                     <  1:58828/140‑1 (MQ=255)

                                                                                          attCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTCTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCACAAAAGCt                                     <  1:423090/140‑1 (MQ=255)

                                                                                           ttCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTg                                    >  1:282569/1‑140 (MQ=255)

                                                                                             cTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCAGTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGc                                  >  2:812242/1‑140 (MQ=255)

                                                                                              tGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCa                                 <  1:593686/140‑1 (MQ=255)

                                                                                                cTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCact                               >  1:40953/1‑140 (MQ=255)

                                                                                                    gTAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACtt                           <  2:563929/140‑1 (MQ=255)

                                                                                                     tAAAACACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACctt                          >  2:341191/1‑140 (MQ=255)

                                                                                                       aaaCACGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTg                        <  2:613510/140‑1 (MQ=255)

                                                                                                         acacGCGTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCt                      <  2:282569/140‑1 (MQ=255)

                                                                                                             gcgTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCTtata                  <  1:355372/140‑1 (MQ=255)

                                                                                                               gTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGTGACGCGAAATCGTGCGCAAAAGCTGGCACTACtttt                         >  1:321503/1‑131 (MQ=255)

                                                                                                               gTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGTGACGCGAAATCGTGCGCAAAAGCTGGCACTACtttt                         <  2:321503/131‑1 (MQ=255)

                                                                                                               gTAAATATTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCTTATAag                >  2:710715/1‑140 (MQ=255)

                                                                                                                   atatTTTGCGCCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCTTATAAGAGGa            <  1:783912/140‑1 (MQ=255)

                                                                                                                           cgcCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTACGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCTTATAAGAGGATGGCcaca    >  2:807967/1‑140 (MQ=255)

                                                                                                                           cgcCAAAATGTGTCGCATGTTTCATTTTCACACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCTTATAAGAGGATGGCcaca    <  1:383609/140‑1 (MQ=255)

                                                                                                                            gcCAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCTTATAAGAGGATGGCCacag   <  2:264228/140‑1 (MQ=255)

                                                                                                                             ccAAAATGTGTCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCTTATAAGAGGATGGCCacaga  <  1:912217/140‑1 (MQ=255)

TTACATCGCGTTATTTCGCTGCTTTCGAAATAACGCATCAATTTAATTTTCACACTTCCCACCAGAAATATACTCACGCTAACAATCATTATTCTGCTTAGTAAAACACGCGTAAATATTTTGCGCCAAAATGTGGCGCATGTTTCATTTTCGCACCATTGCGGGGCGCTGTTTTTATTATTTCCTGTCTACACTCAGCTTATTGCGACGCGAAATCGTGCGCAAAAGCTGGCACTACTTTTGCTTATAAGAGGATGGCCACAGA  >  NC_000913/3418717‑3418981

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A