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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	983,623	G→A	183 (TAG→TAA)	ycbK →	M15A protease‑related family periplasmic protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	983,623	0	G	A	100.0%	187.0 / NA	58	183 (TAG→TAA)	ycbK	M15A protease‑related family periplasmic protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (31/27); total (31/27)

TTGAAGGTATCGCGTTAAGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAGTAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATG  >  NC_000913/983502‑983752

ttGAAGGTATCGCGTTAAGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAGCGAAAc                                                                                                                  >  2:652861/1‑139 (MQ=255)

     ggTATCGCGTTAAGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAgggg                                                                                                             >  2:436029/1‑139 (MQ=255)

     ggTATCGCGTTAAGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAgggg                                                                                                             <  1:332968/139‑1 (MQ=255)

     ggTATCGCGTTAAGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAgggg                                                                                                             <  1:916375/139‑1 (MQ=255)

         tCGCGTTAAGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTGGGTAATTATCAACTAATTACCTTGGTGCAAATTGATACGGGCCCAGCACGGCATGGGTAATAATTCCTTAACGAACAAGGGTCAGt                                                                                                         >  2:946088/1‑139 (MQ=255)

           gcgTTAAGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTAt                                                                                                       >  1:716697/1‑139 (MQ=255)

            cgTTAAGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATg                                                                                                      <  1:489370/139‑1 (MQ=255)

                aaGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACt                                                                                                  >  1:876320/1‑139 (MQ=255)

                                gCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGtaataa                                                                                                                                <  1:686266/93‑1 (MQ=255)

                                gCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGt                                                                                  >  2:863583/1‑139 (MQ=255)

                                gCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACATTGTGCATATTGATACCGGGCCAGCACGGCACTGGtaataa                                                                                                                                >  2:686266/1‑93 (MQ=255)

                                   gcgTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCAc                                                                               <  2:902193/139‑1 (MQ=255)

                                        aTCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCAt                                                                          <  2:716697/139‑1 (MQ=255)

                                            aTGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGta                                                                                            >  1:1079496/1‑117 (MQ=255)

                                            aTGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGta                                                                                            <  2:1079496/117‑1 (MQ=255)

                                                 cgcAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    <  2:160439/104‑1 (MQ=255)

                                                 cgcAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    >  1:160439/1‑104 (MQ=255)

                                                         gtgtAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCa                                                         <  1:863583/139‑1 (MQ=255)

                                                                 tattatCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAAt                                                    >  1:644441/1‑136 (MQ=255)

                                                                 tattatCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAAt                                                    <  2:644441/136‑1 (MQ=255)

                                                                    tatCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAgggg                                                                                                             >  1:823337/1‑76 (MQ=255)

                                                                    tatCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAgggg                                                                                                             <  2:823337/76‑1 (MQ=255)

                                                                    tatCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGgtg                                              >  2:904611/1‑139 (MQ=255)

                                                                      tCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTa                                                                                                 >  2:911652/1‑86 (MQ=255)

                                                                      tCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTa                                                                                                 <  1:911652/86‑1 (MQ=255)

                                                                         aCGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    >  1:763973/1‑80 (MQ=255)

                                                                         aCGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    <  2:763973/80‑1 (MQ=255)

                                                                             agtaACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAAc                                     >  2:122259/1‑139 (MQ=255)

                                                                                     tgtgCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAgggg                                                                                                             >  1:292257/1‑59 (MQ=255)

                                                                                     tgtgCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAgggg                                                                                                             <  2:292257/59‑1 (MQ=255)

                                                                                     tgtgCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGt                                 <  1:341208/135‑1 (MQ=255)

                                                                                     tgtgCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACACGt                                 >  2:341208/1‑135 (MQ=255)

                                                                                       tgCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAggg                                                                                                              >  1:107848/1‑56 (MQ=255)

                                                                                       tgCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAggg                                                                                                              <  2:107848/56‑1 (MQ=255)

                                                                                       tgCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACt                                                              <  2:315883/104‑1 (MQ=255)

                                                                                       tgCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACt                                                              >  1:315883/1‑104 (MQ=255)

                                                                                       tgCATATTGATACCGGGCCAGCACGGCACTGGTAATAATTGCCTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGgtgt                                             <  2:680239/121‑1 (MQ=255)

                                                                                       tgCATATCGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGgtgt                                             >  1:680239/1‑121 (MQ=255)

                                                                                          atatTGATACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCa                        <  2:876320/139‑1 (MQ=255)

                                                                                                 tACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCa                                                                           >  1:633778/1‑81 (MQ=255)

                                                                                                 tACCGGGCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCa                                                                           <  2:633778/81‑1 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAgggg                                                                                                             >  1:543006/1‑42 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAgggg                                                                                                             <  2:543006/42‑1 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    >  2:414032/1‑51 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    >  2:1097606/1‑51 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    <  1:1097606/51‑1 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    <  1:414032/51‑1 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTa                                                                                                 >  1:873674/1‑54 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTa                                                                                                 <  2:873674/54‑1 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGa                                           <  1:266827/108‑1 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGa                                           >  2:266827/1‑108 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCt            >  1:888408/1‑139 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCt            >  1:774975/1‑139 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCt            >  2:454486/1‑139 (MQ=255)

                                                                                                      ggCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCt            >  2:262820/1‑139 (MQ=255)

                                                                                                       gCCAGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTg           >  2:430694/1‑139 (MQ=255)

                                                                                                          aGCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTggcg        >  2:1076992/1‑139 (MQ=255)

                                                                                                           gCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    <  1:466456/46‑1 (MQ=255)

                                                                                                           gCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGaa                                                                                                    >  2:466456/1‑46 (MQ=255)

                                                                                                           gCACGGCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTggcgg       <  1:436029/139‑1 (MQ=255)

                                                                                                                gCACTGGTAATAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATg  <  1:122259/139‑1 (MQ=255)

TTGAAGGTATCGCGTTAAGCAATATTCGCAAAGCCGCGTTATCTATGCGCGCAGGTGGTGTAGGATATTATCCACGTAGTAACTTTGTGCATATTGATACCGGGCCAGCACGGCACTGGTAGTAATTGCTTAACGAAACAGGGGCAGTATGAACTATCGTATTATTCCGGTCACCGCATTCTCCCAGAACTGTTCATTAATCTGGTGTGAACAAACCCGTCTGGCCGCACTGGTCGATCCTGGCGGCGATG  >  NC_000913/983502‑983752

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A