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
A10 F1 I2 R1 67 36.0 1614110 95.1% 1535018 114.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,901,765 G→A G152G (GGC→GGT)  bglH ← carbohydrate‑specific outer membrane porin, cryptic

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,901,7650GA100.0% 159.7 / NA 46G152G (GGC→GGT) bglHcarbohydrate‑specific outer membrane porin, cryptic
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (25/21);  total (25/21)

AAACCAGCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGGCCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGGAAGA  >  NC_000913/3901630‑3901899
                                                                                                                                       |                                                                                                                                      
aaaCCAGCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGAccc                                                                                                                                     <  1:510701/139‑1 (MQ=255)
 aaCAAGCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCa                                                                                                                                    <  1:523491/139‑1 (MQ=255)
      gCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGaa                                                                                                                               >  1:368486/1‑139 (MQ=255)
               gTACTGCTGACCAACGTTACCATCCATCATCACAACGGGATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc                                                                                                                      <  2:639170/139‑1 (MQ=255)
               gTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc                                                                                                                      <  2:208345/139‑1 (MQ=255)
                tACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGccc                                                                                                                     >  2:745226/1‑139 (MQ=255)
                    gctgACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAAt                                                                                                                          <  2:458809/130‑1 (MQ=255)
                    gctgACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAAt                                                                                                                          >  1:458809/1‑130 (MQ=255)
                           aaCGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGt                                                                                                          <  2:84323/139‑1 (MQ=255)
                                        atcatcACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAgg                                                                                             <  1:343524/139‑1 (MQ=255)
                                          catcaCAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCg                                                                                           >  2:681872/1‑139 (MQ=255)
                                              acaACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTcc                                                                                       <  1:482400/139‑1 (MQ=255)
                                                aaCGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTcccc                                                                                     >  1:477056/1‑139 (MQ=255)
                                                 gcGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTccccc                                                                                    >  2:66792/2‑139 (MQ=255)
                                                     cATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc                                                                                                                      >  1:127337/1‑101 (MQ=255)
                                                     cATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc                                                                                                                      <  2:127337/101‑1 (MQ=255)
                                                     cATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAAcc                                                                                >  2:803228/1‑139 (MQ=255)
                                                     cATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAAcc                                                                                >  1:270223/1‑139 (MQ=255)
                                                       tCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGa                                                                                                        >  1:711729/1‑113 (MQ=255)
                                                       tCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGa                                                                                                        <  2:711729/113‑1 (MQ=255)
                                                        cAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGa                                                                             <  1:803228/139‑1 (MQ=255)
                                                         aaCCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGaa                                                                            <  1:730064/139‑1 (MQ=255)
                                                         aaCCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGaa                                                                            <  1:154509/139‑1 (MQ=255)
                                                          aCCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAAc                                                                           >  2:439311/1‑139 (MQ=255)
                                                           cccGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACg                                                                          <  2:574358/139‑1 (MQ=255)
                                                               tttGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTaa                                                                      >  2:423572/1‑139 (MQ=255)
                                                               cttGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTaa                                                                      >  2:502931/2‑139 (MQ=255)
                                                                   ccGGTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGc                                                                  >  2:435771/1‑139 (MQ=255)
                                                                                       ttgttTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAAtt                                              >  2:134341/1‑139 (MQ=255)
                                                                                         gttTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc                                                                                                                      <  1:734732/65‑1 (MQ=255)
                                                                                         gttTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGcc                                                                                                                      >  2:734732/1‑65 (MQ=255)
                                                                                                    aaaTCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACt                                                        >  2:56136/1‑116 (MQ=255)
                                                                                                    aaaTCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACt                                                        <  1:56136/116‑1 (MQ=255)
                                                                                                     aaTCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACaaa                                <  1:462292/139‑1 (MQ=255)
                                                                                                      aTCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAAcc                                                                                >  1:616484/1‑90 (MQ=255)
                                                                                                      aTCAAACCAGCCGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAAcc                                                                                <  2:616484/90‑1 (MQ=255)
                                                                                                                ccGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAAt                     >  2:428425/1‑139 (MQ=255)
                                                                                                                ccGGAGTATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAAt                     >  2:562718/1‑139 (MQ=255)
                                                                                                                      tATTCGTTACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCa               <  1:681872/139‑1 (MQ=255)
                                                                                                                            ttACCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCa         <  1:134341/139‑1 (MQ=255)
                                                                                                                              aCCAAAGCGACCCAGAGAACCTATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAg                                                                              <  2:58725/68‑1 (MQ=255)
                                                                                                                              aCCAAAGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAg                                                                              >  1:58725/1‑68 (MQ=255)
                                                                                                                                  aaGCGACCCAGAGAACCCATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGgaag   >  2:460978/1‑139 (MQ=255)
                                                                                                                                  aaGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGgaag   >  2:224613/1‑139 (MQ=255)
                                                                                                                                   aGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGgaaga  >  1:421022/1‑139 (MQ=255)
                                                                                                                                   aGCGACCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGgaaga  >  2:535353/1‑139 (MQ=255)
                                                                                                                                       |                                                                                                                                      
AAACCAGCCGGTAGAGTACTGCTGACCAACGTTACCATCCATCATCACAACGGCATCAACCCGTTTGCCGTTTTCGTTGTAGACACGTTGTTTTAACTGCAAATCAAACCAGCCGGAGTATTCGTTACCAAAGCGGCCCAGAGAACCAATCGCCCATGATTTAGGTGAACCATGAGAGGCGGTCCCCCAACCAGAACGGTAATAGCCGTTGTAACTAAAGCCAATTTCATCTTTCACAAATTTACTGAAATCTTTCAGAGTCATGGAAGA  >  NC_000913/3901630‑3901899

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ 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