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
A1 F1 I1 R1 773 79.9 4112934 92.2% 3792125 104.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,726,622 G→A *200* (TAG→TAA)  nemR → transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,726,6220GA100.0% 179.4 / NA 55*200* (TAG→TAA) nemRtranscriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (26/29);  total (26/29)

CTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAGCAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTGCG  >  NC_000913/1726491‑1726747
                                                                                                                                   |                                                                                                                             
cTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCAt                                                                                                                        <  2:1935376/139‑1 (MQ=255)
cTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCAt                                                                                                                        >  2:525839/1‑139 (MQ=255)
        ggCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATc                                                                                                                >  2:233592/1‑139 (MQ=255)
         gCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCa                                                                                                               >  2:1083835/1‑139 (MQ=255)
           acaAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCAcc                                                                                                             >  2:257957/1‑139 (MQ=255)
                  cTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCAt                                                                                                                        >  2:1869424/1‑121 (MQ=255)
                  cTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCAt                                                                                                                        <  1:1869424/121‑1 (MQ=255)
                    ttACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCg                                                                                                    >  2:625075/1‑139 (MQ=255)
                      aCGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  <  1:625075/139‑1 (MQ=255)
                      aCGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  <  1:257957/139‑1 (MQ=255)
                       cGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGa                                                                                                 <  1:703873/139‑1 (MQ=255)
                          aCTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAgg                                                                                                                           >  2:292829/1‑110 (MQ=255)
                          aCTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAgg                                                                                                                           <  1:292829/110‑1 (MQ=255)
                            tgtgGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCgg                                                                                                   >  1:1852520/1‑132 (MQ=255)
                            tgtgGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCgg                                                                                                   <  2:1852520/132‑1 (MQ=255)
                             gtgGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCa                                                                                                               <  1:1482117/119‑1 (MQ=255)
                             gtgGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCa                                                                                                               >  2:1482117/1‑119 (MQ=255)
                                 cTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  <  1:1619453/128‑1 (MQ=255)
                                 cTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  >  2:1619453/1‑128 (MQ=255)
                                    ggCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCAt                                                                                    <  2:507665/139‑1 (MQ=255)
                                      cgcgAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  <  1:758813/123‑1 (MQ=255)
                                      cgcgAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  >  2:758813/1‑123 (MQ=255)
                                      cgcgAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACAGTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCt                                                                                  >  2:741406/1‑139 (MQ=255)
                                       gcgAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTg                                                                                 <  1:1083835/139‑1 (MQ=255)
                                        cgAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  <  1:1947048/121‑1 (MQ=255)
                                        cgAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  >  2:1947048/1‑121 (MQ=255)
                                        cgAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGa                                                                                >  1:26025/1‑139 (MQ=255)
                                         gAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGaa                                                                               <  1:525839/139‑1 (MQ=255)
                                            tCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGaaaaa                                                                            <  1:741406/139‑1 (MQ=255)
                                            tCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGaaaaa                                                                            <  1:233592/139‑1 (MQ=255)
                                                    ccAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTc                                                                    <  2:1477002/139‑1 (MQ=255)
                                                    ccAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTc                                                                    <  2:26025/139‑1 (MQ=255)
                                                             cgcgCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCgg                                                                                                   >  1:468904/1‑99 (MQ=255)
                                                             cgcgCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCgg                                                                                                   <  2:468904/99‑1 (MQ=255)
                                                                              cTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTg                                                                                 >  1:2015945/1‑100 (MQ=255)
                                                                              cTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTg                                                                                 <  2:2015945/100‑1 (MQ=255)
                                                                              cTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTggg                                                     >  1:486507/1‑128 (MQ=255)
                                                                              cTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTggg                                                     <  2:486507/128‑1 (MQ=255)
                                                                                                  tGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  >  2:988215/1‑63 (MQ=255)
                                                                                                  tGTAAAAAACATTATTGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  <  1:988215/63‑1 (MQ=255)
                                                                                                            attattGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGa            >  2:2026268/1‑139 (MQ=255)
                                                                                                             ttattGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCAc                                                               <  1:373290/87‑1 (MQ=255)
                                                                                                             ttattGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCAc                                                               >  2:373290/1‑87 (MQ=255)
                                                                                                              tattGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGt                               <  2:374579/118‑1 (MQ=255)
                                                                                                              tattGCGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGt                               >  1:374579/1‑118 (MQ=255)
                                                                                                                   cGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTAtt                                                                     >  2:1008082/1‑75 (MQ=255)
                                                                                                                   cGACGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTAtt                                                                     <  1:1008082/75‑1 (MQ=255)
                                                                                                                     aCGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGAt                                               >  1:374229/1‑95 (MQ=255)
                                                                                                                     aCGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGAt                                               <  2:374229/95‑1 (MQ=255)
                                                                                                                      cGCCTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTACGTCCTCTGAAAAACTGTATTCCCCTCTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACGGCTGACGCGTCTgcg  <  1:1372105/139‑1 (MQ=255)
                                                                                                                        ccTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  <  2:188443/41‑1 (MQ=255)
                                                                                                                        ccTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCggg                                                                                                  >  1:188443/1‑41 (MQ=255)
                                                                                                                        ccTGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCa                                     >  2:1325613/1‑102 (MQ=255)
                                                                                                                        ccTGCCGTCTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCa                                     <  1:1325613/102‑1 (MQ=255)
                                                                                                                          tGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACt                                                                          <  1:2014322/63‑1 (MQ=255)
                                                                                                                          tGCCGTTTAACAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACt                                                                          >  2:2014322/1‑63 (MQ=255)
                                                                                                                                   |                                                                                                                             
CTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTAAAAAACATTATTGCGACGCCTGCCGTTTAGCAGGCATTTTTTATCACCAGACGACCGGGAGCCTTTATGTCATCTGAAAAACTGTATTCCCCACTGAAAGTGGGCGCGATCACGGCGGCAAACCGTATTTTTATGGCACCGCTGACGCGTCTGCG  >  NC_000913/1726491‑1726747

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