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
A12 F1 I1 R1 760 58.2 3022526 90.8% 2744453 102.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,527,562 A→G L140P (CTG→CCG)  sgcA ← putative phosphotransferase enzyme IIA component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,527,5620AG100.0% 182.7 / NA 50L140P (CTG→CCG) sgcAputative phosphotransferase enzyme IIA component
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (25/25);  total (25/25)

TGCAGGCTCCCAAAATCCAGATTGTCCAATGCCGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCAGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGAATGGTCAAAATATGTGCGTTGGCATCCGTGGCGCTGACGCAGAGAAGCAG  >  NC_000913/4527446‑4527695
                                                                                                                    |                                                                                                                                     
tGCAGGCTCCCAAAATCCAGATTGTCCAATGCCGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCtgt                                                                                                                 >  1:632073/1‑139 (MQ=255)
  cAGGCTCCCAAAATCCAGATTGTCCAATGCCGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGc                                                                                                               >  1:726993/1‑139 (MQ=255)
    ggCTCCCAAAATCCAGATTGTCCAATGCCGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTg                                                                                                             >  1:30269/1‑139 (MQ=255)
              aTCCAGATTGTCCAATGCCGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCa                                                                                                   <  2:30269/139‑1 (MQ=255)
                 cAGATTGTCCAATGCCGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTg                                                                                                <  1:572761/139‑1 (MQ=255)
                        tCCAATGCCGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAAc                                                                                                                               <  1:56301/101‑1 (MQ=255)
                        tCCAATGCCGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAAc                                                                                                                               >  2:56301/1‑101 (MQ=255)
                               ccGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTg                                                                                                >  2:454504/1‑125 (MQ=255)
                               ccGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTg                                                                                                <  1:454504/125‑1 (MQ=255)
                                 gTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTg                                                                                                <  1:609418/123‑1 (MQ=255)
                                 gTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTg                                                                                                >  2:609418/1‑123 (MQ=255)
                                  tCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCaaa                                                                                                                                >  2:1046064/1‑90 (MQ=255)
                                  tCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCaaa                                                                                                                                <  1:1046064/90‑1 (MQ=255)
                                  tCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAg                                                                                                                             >  1:1404959/1‑93 (MQ=255)
                                  tCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAg                                                                                                                             <  2:1404959/93‑1 (MQ=255)
                                  tCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGc                                                                               >  2:1357891/1‑139 (MQ=255)
                                   cAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCg                                                                              <  2:726993/139‑1 (MQ=255)
                                   cAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCg                                                                              <  2:400756/139‑1 (MQ=255)
                                     gCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGaa                                                                            <  1:1192468/139‑1 (MQ=255)
                                                       gagGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATaaa                                                                    >  2:788860/1‑129 (MQ=255)
                                                       gagGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATaaa                                                                    <  1:788860/129‑1 (MQ=255)
                                                                  cTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGAATGGt                                               <  1:1441146/139‑1 (MQ=255)
                                                                               ggTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCtgtg                                                                                                                >  2:928046/1‑61 (MQ=255)
                                                                               ggTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCtgtg                                                                                                                <  1:928046/61‑1 (MQ=255)
                                                                               ggTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCg                                                                                      <  2:63742/87‑1 (MQ=255)
                                                                               ggTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCg                                                                                      >  1:63742/1‑87 (MQ=255)
                                                                               ggTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATaa                                                                     <  1:1098733/104‑1 (MQ=255)
                                                                               ggTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATaa                                                                     >  2:1098733/1‑104 (MQ=255)
                                                                                  gCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATgcg                                                        >  1:254275/1‑114 (MQ=255)
                                                                                  gCAGGATCATAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATgcg                                                        <  2:254275/114‑1 (MQ=255)
                                                                                           tAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGc                                                                                                                          >  2:125160/1‑39 (MQ=255)
                                                                                           tAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGc                                                                                                                          <  1:125160/39‑1 (MQ=255)
                                                                                           tAAGCGCCTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGAATGGTCAAAATATGTGCGTTGGCATCCGTg                      >  2:794428/1‑139 (MQ=255)
                                                                                                 ccTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCg                                                                                      <  2:351015/69‑1 (MQ=255)
                                                                                                 ccTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCg                                                                                      >  1:351015/1‑69 (MQ=255)
                                                                                                 ccTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGaa                                                   <  2:200221/104‑1 (MQ=255)
                                                                                                 ccTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGaa                                                   >  1:200221/1‑104 (MQ=255)
                                                                                                 ccTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGAATGGTCAAAATATGTGCGTTGGTATCCGTGgcg                   >  2:1380682/1‑136 (MQ=255)
                                                                                                 ccTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGAATGGTCAAAATATGTGCGTTGGTATCCGTGgcg                   <  1:1380682/136‑1 (MQ=255)
                                                                                                  cTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTg                                                             >  2:807445/1‑93 (MQ=255)
                                                                                                  cTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGaa                                                   <  1:554446/103‑1 (MQ=255)
                                                                                                  cTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGaa                                                   >  2:554446/1‑103 (MQ=255)
                                                                                                  cTCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCGGGCAGTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTg                                                             <  1:807445/93‑1 (MQ=255)
                                                                                                   tCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGaa                                                   <  1:657107/102‑1 (MQ=255)
                                                                                                   tCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGaa                                                   >  2:657107/1‑102 (MQ=255)
                                                                                                   tCCGTTAACCTGATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGAATGGTCAAAATATGTGCGTTGGCATCCGTGGCGCTGAc              >  1:705154/1‑139 (MQ=255)
                                                                                                              gATACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGAATGGTCAAAATATGTGCGTTGGCATCCGTGGCGCTGACGCAGAGAagca   >  2:1019340/1‑139 (MQ=255)
                                                                                                               aTACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGaa                                                   >  1:1142913/1‑90 (MQ=255)
                                                                                                               aTACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGaa                                                   <  2:1142913/90‑1 (MQ=255)
                                                                                                               aTACCGGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGAATGGTCAAAATATGTGCGTTGGCATCCGTGGCGCTGACGCAGAGAagcag  <  2:632073/139‑1 (MQ=255)
                                                                                                                    |                                                                                                                                     
TGCAGGCTCCCAAAATCCAGATTGTCCAATGCCGTCAGCTCACGACCATAGTGCAGAGGATTTGCGCTGGCGAGAGAAGGGTGCAGGATCATAAGCGCCTCCGTTAACCTGATACCAGCGCAAACAGTGCATCGTCTGTGCTGGCATTTCCCACTGCCGTTAAGCGTTGTGGCGAATCAATAAACTGGCTGATGCGCTGAATGGTCAAAATATGTGCGTTGGCATCCGTGGCGCTGACGCAGAGAAGCAG  >  NC_000913/4527446‑4527695

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