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
A17 F60 I1 R1 21 68.5 2313054 98.9% 2287610 137.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,942,200 Δ1 bp coding (384/933 nt) znuA ← Zn(2(+)) ABC transporter periplasmic binding protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,942,1990C.100.0% 156.9 / NA 37coding (385/933 nt)znuAZn(2(+)) ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (15/22);  total (15/22)

GTCAAGTTTGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTTCCGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCGCTCCTGGTAATTTGCTTACCGGTTTTTGCATAAACGCTTCCA  >  NC_000913/1942062‑1942330
                                                                                                                                         |                                                                                                                                   
gTCAAGTTTGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTTcgc                                                                                                                                   <  2:311061/140‑3 (MQ=255)
 tCAAGTTTGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTTcgcg                                                                                                                                  <  2:372353/140‑4 (MQ=255)
 tCAAGTTTGACTCGACTTTGCGGCATAAGTTCCACTAAGTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTTcgcg                                                                                                                                  <  1:517562/140‑4 (MQ=255)
    aGTTTGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTgg                                                                                                                              <  2:781852/140‑1 (MQ=255)
    aGTTTGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTgg                                                                                                                              >  2:489631/1‑140 (MQ=255)
    aGTTTGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTgg                                                                                                                              >  1:617273/1‑140 (MQ=255)
    aGTTTGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTgg                                                                                                                              >  2:306214/1‑140 (MQ=255)
       ttGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCg                                                                                                                           <  2:785936/140‑1 (MQ=255)
       ttGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCg                                                                                                                           <  2:1031550/140‑1 (MQ=255)
        tGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGt                                                                                                                          <  2:407538/140‑1 (MQ=255)
         ggCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTg                                                                                                                         <  2:156699/140‑1 (MQ=255)
          gCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTTcgcg                                                                                                                                  >  2:726760/1‑128 (MQ=255)
          gCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTTcgcg                                                                                                                                  <  1:726760/131‑4 (MQ=255)
               aCTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGatcatc                                                                                                                   >  1:529761/1‑140 (MQ=255)
                     cGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGatcatcatcatc                                                                                                             <  2:529761/140‑1 (MQ=255)
                        cATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGcc                                                                                                          <  2:961195/140‑1 (MQ=255)
                        cATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGcc                                                                                                          <  1:489631/140‑1 (MQ=255)
                             gTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGaa                                                                                                     <  1:531959/140‑1 (MQ=255)
                                       ttttCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTtcat                                                                                           >  2:711430/1‑140 (MQ=255)
                                       ttttCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTtcat                                                                                           >  2:95443/1‑140 (MQ=255)
                                           ccATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGt                                                                                       <  1:306214/140‑1 (MQ=255)
                                             aTGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAg                                                                                     <  2:617273/140‑1 (MQ=255)
                                               ggATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCg                                                                                   <  1:95443/140‑1 (MQ=255)
                                                     cAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTca                                                                             <  1:1038245/140‑1 (MQ=255)
                                                     cAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTca                                                                             <  1:711430/140‑1 (MQ=255)
                                                                        tATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAAt                                                          >  2:545269/1‑140 (MQ=255)
                                                                        tATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAAt                                                          >  1:462597/1‑140 (MQ=255)
                                                                           ctctGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGt                                                       >  2:615274/1‑140 (MQ=255)
                                                                                    aaGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTgcgc                                                             >  1:91786/1‑125 (MQ=255)
                                                                                    aaGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTgcgc                                                             <  2:91786/125‑1 (MQ=255)
                                                                                    aaGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCtt                                              <  1:545269/140‑1 (MQ=255)
                                                                                     aGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTc                                             >  2:1051467/1‑140 (MQ=255)
                                                                                      gCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCg                                            <  2:462597/140‑1 (MQ=255)
                                                                                          aaGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTc                                             <  1:345573/135‑1 (MQ=255)
                                                                                          aaGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTc                                             >  2:345573/1‑135 (MQ=255)
                                                                                                cATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCGCTCCTg                                      <  2:1056544/136‑1 (MQ=255)
                                                                                                cATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCGCTCCTg                                      >  1:1056544/1‑136 (MQ=255)
                                                                                                       aaaTCGCCGTGATGGTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCGCTCCTGGTAATTTGCtt                           <  2:158767/140‑1 (MQ=255)
                                                                                                                     gTGATCTTCGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCGCTCCTGGTAATTTGCTTACCGGTTTTTGCAt             <  1:1051467/140‑1 (MQ=255)
                                                                                                                             cGTCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCGCTCCTGGTAATTTGCTTACCGGTTTTTGCATAAACGCtt     >  2:869282/1‑140 (MQ=255)
                                                                                                                               tCACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCGCTCCTGGTAATTTGCTTACCGGTTTTTGCATAAACGCTTcc   <  1:869282/140‑1 (MQ=255)
                                                                                                                                cACTTTTTT‑CGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCGCTCCTGGTAATTTGCTTACCGGTTTTTGCATAAACGCTTCCa  >  2:328033/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                                   
GTCAAGTTTGGCTCGACTTTGCGGCATAAGTTCCACTAATTTTCCATGGATTGCAACCGCTGTAGCCCGCGCTATCTCTGGGGAAAGCCAAAGATGCATGTTGAAATCGCCGTGATGGTGATCTTCGTCACTTTTTTCCGCGTGGTCGTGATCATCATCATCGCCGTGAATACTTTTCATCAGTAGCGGTTTCACATCTTCAAGCTGCGCAATCGTTACCTGCTTCGCTCCTGGTAATTTGCTTACCGGTTTTTGCATAAACGCTTCCA  >  NC_000913/1942062‑1942330

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A