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
A15 F116 I0 R1 44 26.4 562224 96.5% 542546 140.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 406,961 C→G 61.3% A353G (GCA→GGA)  atoB → acetyl‑CoA C‑acetyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730406,9610CG61.3% 16.3 / 36.3 31A353G (GCA→GGA) atoBacetyl‑CoA C‑acetyltransferase
Reads supporting (aligned to +/- strand):  ref base C (7/5);  new base G (12/7);  total (19/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.17e-01

AATTAAGCGATATTGATGTATTTGAATTAAATGAAGCATTTGCAGCACAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGTTGTATCAAAGTATAAATAATAAGAAAACAGGTTAT  >  CP000730/406823‑407101
                                                                                                                                          |                                                                                                                                            
aaTTAAGCGATATTGATGTATTTGAATTAAATGAAGCATTTGCAGCACAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGTGCTATTGCATTAGGACATCCTATTGGTGCAt                                                                                                                                            <  1:177890/141‑1 (MQ=255)
                       gAATTAAATGAAGCATTTGCAGCACAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACa                                                                                                                     >  2:144986/1‑141 (MQ=255)
                        aaTTAAATGAAGCATTTGCAGCACAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTAAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACat                                                                                                                    >  2:224640/1‑141 (MQ=255)
                                gAAGCATTTGCAGCACAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAACGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCAt                                                                                                            >  1:38730/1‑141 (MQ=255)
                                   gCATTTGCAGCACAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCaa                                                                                                         >  1:1532/1‑141 (MQ=255)
                                   gCATTTGCAGCACAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCaa                                                                                                         >  1:1490/1‑141 (MQ=255)
                                         gcagcaCAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGCTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAat                                                                                                   >  1:168811/1‑141 (MQ=255)
                                            gcaCAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAatgat                                                                                                >  2:29864/1‑141 (MQ=255)
                                             cacaATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAatgatg                                                                                               <  1:6593/141‑1 (MQ=255)
                                                           tttGATCGGGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGt                                                                                 <  1:115097/140‑1 (MQ=255)
                                                               aTCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTaa                                                                             >  1:69161/1‑141 (MQ=255)
                                                                     aaTTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAAcatcat                                                                       <  2:272417/141‑1 (MQ=255)
                                                                            aTTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTAt                                                                >  1:20707/1‑141 (MQ=255)
                                                                              tACCTCAAGAAAAGGTGAATGATAAAGGTGGCCCTAATCCATCACCCCATCCTAGTTGTGGATCGGGAGCTAGAGGATTAGTGACACTATTGCCGCAACTGAATGATGAAGTTGAAACTGGTTTAACCTCATTGTGTATtg                                                              >  2:10947/1‑141 (MQ=255)
                                                                               aCCTTCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATtgg                                                             <  1:242366/141‑1 (MQ=255)
                                                                               aCCTCCTGGAAAGGTTGATGTTAAAGGTGGCGCTATTGCAATAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATtgg                                                             <  1:242345/141‑1 (MQ=255)
                                                                                   cctGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGGGGc                                                         >  1:36753/1‑141 (MQ=255)
                                                                                        aaaGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGGGGTCa                                                    >  2:195241/1‑141 (MQ=255)
                                                                                        aaaCGTGAAGGAAAAAGGTGTCGCTATTGCATTATGACAGCCCATCGGAAGAGCTGGTGCTCGAGTATTAGTGACATTATCGCATCAACTGAATGATGAAAATTAAACTGGCTTCACATCGTAGTGTaccgggagcagtca                                                    >  2:195247/1‑128 (MQ=255)
                                                                                         aaGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCaa                                                   >  2:25088/1‑141 (MQ=255)
                                                                                                    tgaaGGTGGTGCTATTGCCTTAGGACCTCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACGGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTTTCGCTGc                                        <  1:175073/139‑1 (MQ=255)
                                                                                                     aaaGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGAATTGGTGGCGGTTAAGCTATCGCTGCa                                       >  2:119557/1‑141 (MQ=255)
                                                                                                      aaGGTGGCGCTATCGCATTAGGACATCCTATTGGTGGCTCTGGACCTGGAGTATTAGTGACATTATTGCATCAACTGAATGATGCAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAg                                      <  1:120340/141‑1 (MQ=255)
                                                                                                       aGGTGGCGCTATTGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGt                                     <  1:29864/141‑1 (MQ=255)
                                                                                                           ggCGCTATTGCATTAGGACATCCTGTTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGTTGTa                                 <  2:81573/141‑1 (MQ=255)
                                                                                                                   tGCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGGCAAGCTATCGCTGCAGTTGTATCAAAGta                         >  2:222946/1‑141 (MQ=255)
                                                                                                                    gCATTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGTTGTATCAAAGtat                        <  2:259118/141‑1 (MQ=255)
                                                                                                                      aTTAGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGTGGGATCAAAGTataa                      >  1:174670/1‑141 (MQ=255)
                                                                                                                         aGGACATCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGTTGTATCAAAGTataaata                   <  1:68522/141‑1 (MQ=255)
                                                                                                                              aTCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGTTGTATCAAAGTATAAATAATAAg              >  2:22524/1‑141 (MQ=255)
                                                                                                                              aTCCTATTGGTGGATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGTTGTATCAAAGTATAAATAATAAg              >  2:188185/1‑141 (MQ=255)
                                                                                                                                          cATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGTTGTATCAAAGTATAAATAATAAGAAAACAGGTTAt  <  2:48184/141‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                            
AATTAAGCGATATTGATGTATTTGAATTAAATGAAGCATTTGCAGCACAATCATTAGCTGTTGATCGTGAATTAAAATTACCTCCTGAAAAGGTGAATGTTAAAGGTGGCGCTATTGCATTAGGACATCCTATTGGTGCATCTGGTGCTAGAGTATTAGTGACATTATTGCATCAACTGAATGATGAAGTTGAAACTGGTTTAACATCATTGTGTATTGGTGGCGGTCAAGCTATCGCTGCAGTTGTATCAAAGTATAAATAATAAGAAAACAGGTTAT  >  CP000730/406823‑407101

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A