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 F28 I1 R1 163 52.9 1786516 99.3% 1774010 139.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,949,993 (T)5→6 coding (752/1332 nt) argA → N‑acetylglutamate synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,949,9881.T95.7% 153.4 / ‑0.4 46coding (747/1332 nt)argAN‑acetylglutamate synthase
Reads supporting (aligned to +/- strand):  ref base . (1/1);  new base T (26/18);  total (27/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.81e-01

GATTGGTTTTTGCTCTTCCCAGGGCGTCACTAATGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑C‑TTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACGCAGATTGTGATGGAAAG  >  NC_000913/2949856‑2950122
                                                                                                                                      |                                                                                                                                      
gatTGGTTTTTGCTCTTCCCAGGGCGTCACTAATGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑C‑ttttttg                                                                                                                                 >  2:84226/1‑138 (MQ=255)
 atTGGTTTTTGCTCTTCCCAGGGCGTCACTAATGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGAACGGTGCG‑C‑ttttttgc                                                                                                                                >  1:686975/1‑137 (MQ=255)
       ttttGCTCTTCCCAGGGCGTCACTAATGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCAAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGgcg                                                                                                                           <  2:314252/140‑1 (MQ=255)
                  ccAGGGCGTCACTAATGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGcc                                                                                                                <  2:779321/140‑1 (MQ=255)
                           cACTAATGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAgc                                                                                                       >  2:291816/1‑140 (MQ=255)
                           cACTAATGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAgc                                                                                                       >  2:103444/1‑140 (MQ=255)
                           cACTAATGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAgc                                                                                                       >  1:871214/1‑140 (MQ=255)
                                 tGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGgcgtg                                                                                                 <  2:338532/140‑1 (MQ=255)
                                     gacgGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCGCC‑TTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTc                                                                                             >  2:121526/1‑140 (MQ=255)
                                     gacgGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTc                                                                                             >  1:89889/1‑140 (MQ=255)
                                     gacgGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTc                                                                                             >  1:73124/1‑140 (MQ=255)
                                      acgGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCg                                                                                            >  2:199792/1‑140 (MQ=255)
                                       cgGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGc                                                                                           <  1:55500/140‑1 (MQ=255)
                                        ggTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCGCC‑TTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCt                                                                                          <  1:121526/140‑1 (MQ=255)
                                        ggTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCt                                                                                          <  2:73124/140‑1 (MQ=255)
                                        ggTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCt                                                                                          >  1:837821/1‑140 (MQ=255)
                                        ggTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCt                                                                                          >  1:769528/1‑140 (MQ=255)
                                                  tctcCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAAt                                                                                <  2:769528/140‑1 (MQ=255)
                                                  tctcCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAAt                                                                                >  2:813429/1‑140 (MQ=255)
                                                  tctcCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAAt                                                                                >  2:215515/1‑140 (MQ=255)
                                                    tcCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCa                                                                              >  2:633811/1‑140 (MQ=255)
                                                    tcCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCa                                                                              >  2:309463/1‑140 (MQ=255)
                                                     ccGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAg                                                                             <  2:89889/140‑1 (MQ=255)
                                                      cGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGt                                                                            >  1:119323/1‑140 (MQ=255)
                                                         aCTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTAt                                                                         <  1:84226/140‑1 (MQ=255)
                                                                        agcgcaagcgcGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGgcgcg                                                          <  1:215515/140‑1 (MQ=255)
                                                                         gcgcaagcgcGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGgcgcgc                                                         <  2:837821/140‑1 (MQ=255)
                                                                          cgcaagcgcGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCt                                                        >  2:523441/1‑140 (MQ=255)
                                                                            caagcgcGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGt                                                      >  1:549416/1‑140 (MQ=255)
                                                                              agcgcGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTg                                                    >  1:233950/1‑140 (MQ=255)
                                                                              agcgcGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTg                                                    >  2:458273/1‑140 (MQ=255)
                                                                               gcgcGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGc                                                   <  1:523441/140‑1 (MQ=255)
                                                                                           gCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTtct                                       <  2:119323/140‑1 (MQ=255)
                                                                                               aGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCAcg                                   >  2:597848/1‑140 (MQ=255)
                                                                                                ggAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCAcgc                                  <  1:103444/140‑1 (MQ=255)
                                                                                                ggAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCAcgc                                  <  1:813429/140‑1 (MQ=255)
                                                                                                     agaAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACgg                             <  1:309463/140‑1 (MQ=255)
                                                                                                     agaAAGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACgg                             >  2:446439/1‑140 (MQ=255)
                                                                                                        aaGGCGATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTAt                          <  2:158053/140‑1 (MQ=255)
                                                                                                             gATTACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTa                     >  2:196758/1‑140 (MQ=255)
                                                                                                               ttACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACg                   >  1:679563/1‑140 (MQ=255)
                                                                                                                tACAACTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACGc                  >  2:688643/1‑140 (MQ=255)
                                                                                                                   aaCTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACGCAGa               <  1:328309/140‑1 (MQ=255)
                                                                                                                   aaCTCCGGTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACGCAGa               <  1:291816/140‑1 (MQ=255)
                                                                                                                          gTACGGTGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACGCAGATTGTGAt        >  2:509525/1‑140 (MQ=255)
                                                                                                                                tGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGGGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACGCAGATTGTGATGGAAAg  >  2:614280/1‑140 (MQ=255)
                                                                                                                                tGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAGGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACGCAGATTGTGATGGAAAg  >  2:356775/1‑140 (MQ=255)
                                                                                                                                tGCG‑CTTTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACGCAGATTGTGATGGAAAg  >  2:90946/1‑140 (MQ=255)
                                                                                                                                      |                                                                                                                                      
GATTGGTTTTTGCTCTTCCCAGGGCGTCACTAATGACGACGGTGATATTGTCTCCGAACTTTTCCCTAACGAAGCGCAAGCGCGGGTAGAAGCCCAGGAAGAGAAAGGCGATTACAACTCCGGTACGGTGCG‑C‑TTTTTGCGTGGCGCAGTGAAAGCCTGCCGCAGCGGCGTGCGTCGCTGTCATTTAATCAGTTATCAGGAAGATGGCGCGCTGTTGCAAGAGTTGTTCTCACGCGACGGTATCGGTACGCAGATTGTGATGGAAAG  >  NC_000913/2949856‑2950122

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A