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
A11 F1 I1 R1 757 76.1 3598070 93.4% 3360597 108.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,697,915 C→T *212* (TAG→TAA)  pgpC ← phosphatidylglycerophosphatase C, membrane bound

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,697,9150CT96.2% 149.2 / ‑1.7 52*212* (TAG→TAA) pgpCphosphatidylglycerophosphatase C, membrane bound
Reads supporting (aligned to +/- strand):  ref base C (1/1);  new base T (30/20);  total (31/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.26e-01

CTCATCCCAGGCACGTTTCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTCTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTG  >  NC_000913/2697783‑2698041
                                                                                                                                    |                                                                                                                              
cTCATCCCAGGCACGTTTCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTcc                                                                                                                          <  2:1572640/139‑1 (MQ=255)
    tCCCAGGCACGTTTCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGtt                                                                                                                      >  2:829358/1‑139 (MQ=255)
               tttCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCa                                                                                                           >  2:155824/1‑139 (MQ=255)
               tttCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCa                                                                                                           >  1:291261/1‑139 (MQ=255)
               tttCGCCAGCGTCAGCGAGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCa                                                                                                           >  2:1125157/1‑139 (MQ=255)
                        cGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGTCTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCG‑‑GCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGt                                                                                                <  2:1298397/139‑1 (MQ=255)
                          tCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGt                                                                                                >  1:1660751/1‑139 (MQ=255)
                            aGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTa                                                                                              <  2:793664/139‑1 (MQ=255)
                            aGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTa                                                                                              >  1:1434036/1‑139 (MQ=255)
                                                   gTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCt                                                                               >  2:1380082/1‑131 (MQ=255)
                                                   gTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCt                                                                               <  1:1380082/131‑1 (MQ=255)
                                                   gTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTAATTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGaaa                                                                       >  1:257283/1‑139 (MQ=255)
                                                     ggCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATa                                                                     <  2:1434036/139‑1 (MQ=255)
                                                      gCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTCTGCTTTACTTTATT‑CAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATg                                                                                 >  2:787995/1‑125 (MQ=255)
                                                      gCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATaa                                                                    >  1:295859/1‑139 (MQ=255)
                                                      gCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATT‑CAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATg                                                                                 <  1:787995/125‑1 (MQ=255)
                                                        tAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAag                                                                  >  2:957872/1‑139 (MQ=255)
                                                               gACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGa                                                           <  1:829358/139‑1 (MQ=255)
                                                                    cAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTc                                                      <  2:1660751/139‑1 (MQ=255)
                                                                    cAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTc                                                      <  2:291261/139‑1 (MQ=255)
                                                                                 aaCTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCg                                         >  2:437414/1‑139 (MQ=255)
                                                                                      cGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGt                                                                                                                       <  1:5225/56‑1 (MQ=255)
                                                                                      cGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGt                                                                                                                       >  2:5225/1‑56 (MQ=255)
                                                                                       ggTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAg                                   >  1:1143812/1‑139 (MQ=255)
                                                                                        gTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGc                                  >  1:88060/1‑139 (MQ=255)
                                                                                        gTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGc                                  >  2:1159357/1‑139 (MQ=255)
                                                                                           ataAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCAc                               <  1:155824/139‑1 (MQ=255)
                                                                                                  cgcgGCGCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAg                        >  2:1209734/1‑139 (MQ=255)
                                                                                                   gcggcgCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCgggg                                                                                                 <  2:1735322/65‑1 (MQ=255)
                                                                                                   gcggcgCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCgggg                                                                                                 >  1:1735322/1‑65 (MQ=255)
                                                                                                   gcggcgCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGc                       >  1:545654/1‑139 (MQ=255)
                                                                                                    cggcgCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACcgcg                                                                                                      <  2:370301/59‑1 (MQ=255)
                                                                                                    cggcgCATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACcgcg                                                                                                      >  1:370301/1‑59 (MQ=255)
                                                                                                       cgcATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTc                                          >  1:560641/1‑116 (MQ=255)
                                                                                                       cgcATTATACACGGACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTc                                          <  2:560641/116‑1 (MQ=255)
                                                                                                                   ggACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTc                                                      <  2:129910/92‑1 (MQ=255)
                                                                                                                   ggACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTc                                                      >  1:129910/1‑92 (MQ=255)
                                                                                                                    gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTATTg                                            >  2:753750/1‑101 (MQ=255)
                                                                                                                    gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTg                                            <  1:753750/101‑1 (MQ=255)
                                                                                                                    gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGt                                           >  2:878765/1‑102 (MQ=255)
                                                                                                                    gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGt                                           <  1:878765/102‑1 (MQ=255)
                                                                                                                    gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGAt      >  2:1166545/1‑139 (MQ=255)
                                                                                                                    gACGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGAt      >  2:389304/1‑139 (MQ=255)
                                                                                                                    gACGCTATGCTTTACTCTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCa                                <  1:879048/113‑1 (MQ=255)
                                                                                                                    gACGCTATGCTTTACTCTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCa                                >  2:879048/1‑113 (MQ=255)
                                                                                                                     aCGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGc                                                                                         <  1:280194/55‑1 (MQ=255)
                                                                                                                     aCGCTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGc                                                                                         >  2:280194/1‑55 (MQ=255)
                                                                                                                        cTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTg  >  2:467323/1‑139 (MQ=255)
                                                                                                                        cTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTg  >  1:462730/1‑139 (MQ=255)
                                                                                                                        cTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTg  >  1:1396039/1‑139 (MQ=255)
                                                                                                                        cTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTg  <  2:88060/139‑1 (MQ=255)
                                                                                                                        cTATGCTTTACTTTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTg  <  2:1396039/139‑1 (MQ=255)
                                                                                                                                    |                                                                                                                              
CTCATCCCAGGCACGTTTCGCCAGCGTCAGCGCGTGACGCATCCAGTATTCGTGGCTAAATTCGACTTCAGACAAAAAGAAAACTCCGGTTATAAAAGCGCGGCGCATTATACACGGACGCTATGCTTTACTCTATTCCAGTTGCTGGAGTTCACCGCGCGGGGTTACTCGCCAACGATGCTGACAGAAATAAAGCAGCGGATTGTCCTGATTACTGTCGCTATAGCCACTGTACAGCCGCAGCGGAGTGCCGATTTTG  >  NC_000913/2697783‑2698041

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A