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
A4 F28 I1 R1 159 82.1 2830106 99.3% 2810295 139.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,007,555 A→G E467G (GAG→GGG)  amyA → alpha‑amylase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,007,5550AG100.0% 105.9 / NA 29E467G (GAG→GGG) amyAalpha‑amylase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (16/13);  total (16/13)

TTTAGCCGCAGTGGCACCGACGAATTTCCCGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGAGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTATCGAAGAGGTGATTTAAATTCATCCCCGGCGGCAAGCCGGGGAGATTTCATTACGGCAGT  >  NC_000913/2007419‑2007686
                                                                                                                                        |                                                                                                                                   
tttAGCCGCAGTGGCACCGACGAATTTCCCGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAagggag                                                                                                                                  <  2:266707/140‑1 (MQ=255)
           tGGCACCGACGAATTTCCCGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACcg                                                                                                                       >  2:1155333/1‑140 (MQ=255)
                   acgaATTTCCCGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAAc                                                                                                               >  1:38675/1‑140 (MQ=255)
                        tttCCCGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGa                                                                                                          <  2:750439/140‑1 (MQ=255)
                          tCCCGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAg                                                                                                        <  2:691710/140‑1 (MQ=255)
                          tCCCGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAg                                                                                                        <  1:483546/140‑1 (MQ=255)
                             cGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGc                                                                                                       <  1:1216246/138‑1 (MQ=255)
                             cGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGc                                                                                                       >  2:1216246/1‑138 (MQ=255)
                               gCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAAcc                                                                                                   <  1:1155333/140‑1 (MQ=255)
                                               gTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAAcggcg                                                                                   >  1:1223631/1‑140 (MQ=255)
                                                tCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAAcggcgg                                                                                  <  2:985775/140‑1 (MQ=255)
                                                 cGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACggcggc                                                                                 <  2:1369811/140‑1 (MQ=255)
                                                  gAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGCGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGca                                                                                >  1:796941/1‑140 (MQ=255)
                                                     cGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGcagcg                                                                             >  1:497993/1‑140 (MQ=255)
                                                       gggATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGcagcgtc                                                                           <  2:794099/140‑1 (MQ=255)
                                                        ggATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGcagcgtca                                                                          <  2:378456/140‑1 (MQ=255)
                                                          atgatgGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGcagcgtcagc                                                                        >  1:299532/1‑140 (MQ=255)
                                                          atgatgGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGcagcgtcagc                                                                        >  1:1187356/1‑140 (MQ=255)
                                                             atgGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCgtg                                                                     <  2:299532/140‑1 (MQ=255)
                                                             atgGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCgtg                                                                     <  2:542557/140‑1 (MQ=255)
                                                               ggCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGtgtg                                                                   <  2:265275/140‑1 (MQ=255)
                                                                    aaaaaCCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTa                                                              <  2:63217/140‑1 (MQ=255)
                                                                            ttCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTATCGAagag                                                      >  1:298028/1‑140 (MQ=255)
                                                                                           aTTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTATCGAAGAGGTGATTTAAATTCAt                                       >  2:1106153/1‑140 (MQ=255)
                                                                                           aTTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTATCGAAGAGGTGATTTAAATTCAt                                       >  2:395309/1‑140 (MQ=255)
                                                                                                    aTAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTATCGAAGAGGTGATTTAAATTCATCCCcggcgg                              >  1:619208/1‑140 (MQ=255)
                                                                                                              gCGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTATCGAAGAGGTGATTTAAATTCATCCCCGGCGGCAAGCCgggg                    >  1:821728/1‑140 (MQ=255)
                                                                                                               cGTGATTTTCTGGGGAACCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGACAGCGTCAGCGTGTGGGTTATCGAAGAGGTGATTTAAATTCATCCCCGGCGGCAAGCCGGGga                   >  1:1092418/1‑140 (MQ=255)
                                                                                                                              aaCCGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTATCGAAGAGGTGATTTAAATTCATCCCCGGCGGCAAGCCGGGGAGATTTCATTACGGCa    >  1:741141/1‑140 (MQ=255)
                                                                                                                                ccGGCAAGGGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTATCGAAGAGGTGATTTAAATTCATCCCCGGCGGCAAGCCGGGGAGATTTCATTACGGCAGt  >  1:804032/1‑140 (MQ=255)
                                                                                                                                        |                                                                                                                                   
TTTAGCCGCAGTGGCACCGACGAATTTCCCGGCTGCGTGGTGGTCATGTCGAACGGGGATGATGGCGAAAAAACCATTCATCTGGGAGAGAATTACGGCAATAAAACCTGGCGTGATTTTCTGGGGAACCGGCAAGAGAGAGTAGTGACCGACGAAAACGGCGAAGCAACCTTCTTTTGCAACGGCGGCAGCGTCAGCGTGTGGGTTATCGAAGAGGTGATTTAAATTCATCCCCGGCGGCAAGCCGGGGAGATTTCATTACGGCAGT  >  NC_000913/2007419‑2007686

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A