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
A3 F1 I2 R1 777 59.2 2955938 92.5% 2734242 106.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,304,455 G→A *336* (TAG→TAA)  yhbW → putative luciferase‑like monooxygenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,304,4550GA100.0% 128.3 / NA 41*336* (TAG→TAA) yhbWputative luciferase‑like monooxygenase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (17/24);  total (17/24)

CAGTCGATCCTGCGCGAAACCGACGCCGATGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAGTGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTGATTACTGATACAC  >  NC_000913/3304333‑3304584
                                                                                                                          |                                                                                                                                 
cAGTCGATCCTGCGCGAAACCGACGCCGATGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTc                                                                                                                             <  2:727527/129‑1 (MQ=255)
cAGTCGATCCTGCGCGAAACCGACGCCGATGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTc                                                                                                                             >  1:727527/1‑129 (MQ=255)
 aGTCGATCCTGCGCGAAACCGACGCCGATGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGa                                                                                                                  <  1:619903/139‑1 (MQ=255)
                       cGCCGATGAGATTATGGTCGATGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATTTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            <  1:960557/139‑1 (MQ=255)
                       cGCCGATGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            <  1:323916/139‑1 (MQ=255)
                            aTGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTc                                                                                       <  2:365089/139‑1 (MQ=255)
                            aTGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTc                                                                                       <  2:1118660/139‑1 (MQ=255)
                            aTGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAACTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTc                                                                                       <  2:313802/139‑1 (MQ=255)
                             tGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTcc                                                                                      >  1:1020856/1‑139 (MQ=255)
                                  ttATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACAt                                                                                 <  2:676333/139‑1 (MQ=255)
                                   tATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATa                                                                                <  2:1471939/139‑1 (MQ=255)
                                      ggtcgaagtgCAGATTTTCGACCAGCAGGCGCGGCTGCATTCGTTTGAGCTGGGGATGGATGGTAAGGAAGAGTTGTTGGGATAATGGGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGAc                                                                             <  1:894905/130‑1 (MQ=255)
                                        tCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCt                                                                           >  1:773689/1‑139 (MQ=255)
                                           aCGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGAt                                                                        >  1:1401254/1‑139 (MQ=255)
                                                  gATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATaagcgaa                                                                 <  2:425086/139‑1 (MQ=255)
                                                             accaGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGc                                                      <  2:1020856/139‑1 (MQ=255)
                                                              ccaGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCa                                                     <  1:669237/139‑1 (MQ=255)
                                                                           cATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            <  1:1046541/87‑1 (MQ=255)
                                                                           cATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            >  2:1046541/1‑87 (MQ=255)
                                                                             ttCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGcagcag                                      <  2:773689/139‑1 (MQ=255)
                                                                                          gCGATGGATGTTAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATaa                         >  1:1013832/1‑139 (MQ=255)
                                                                                                    ttAAGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTg               >  1:93762/1‑139 (MQ=255)
                                                                                                      aaGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTc                                                                                       <  2:684832/65‑1 (MQ=255)
                                                                                                      aaGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTc                                                                                       >  1:684832/1‑65 (MQ=255)
                                                                                                      aaGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTGAt             <  2:1013832/139‑1 (MQ=255)
                                                                                                      aaGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTGAt             <  1:896839/139‑1 (MQ=255)
                                                                                                      aaGGAAGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTGAt             <  2:1401254/139‑1 (MQ=255)
                                                                                                          aaGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATaagcgaa                                                                 <  2:470056/83‑1 (MQ=255)
                                                                                                          aaGAGTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATaagcgaa                                                                 >  1:470056/1‑83 (MQ=255)
                                                                                                            gagTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            >  2:1329061/1‑54 (MQ=255)
                                                                                                            gagTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            <  1:1329061/54‑1 (MQ=255)
                                                                                                            gagTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTATATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTGATTACTGa       >  1:59212/1‑139 (MQ=255)
                                                                                                             agTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTGATTACTGAt      >  2:801799/1‑139 (MQ=255)
                                                                                                             agTTGTTGGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGAGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTGATTACTgct      >  1:869852/1‑137 (MQ=255)
                                                                                                                 gttgGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGa                                                                                                      <  1:391768/39‑1 (MQ=255)
                                                                                                                 gttgGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGa                                                                                                      >  2:391768/1‑39 (MQ=255)
                                                                                                                 gttgGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            <  2:837829/49‑1 (MQ=255)
                                                                                                                 gttgGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            >  1:837829/1‑49 (MQ=255)
                                                                                                                 gttgGGATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTGATTACTGATacac  >  2:1326148/1‑139 (MQ=255)
                                                                                                                    gggATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            >  2:1429296/1‑46 (MQ=255)
                                                                                                                    gggATAATGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACg                                                                                            <  1:1429296/46‑1 (MQ=255)
                                                                                                                          |                                                                                                                                 
CAGTCGATCCTGCGCGAAACCGACGCCGATGAGATTATGGTCAACGGGCAGATTTTCGACCACCAGGCGCGGCTGCATTCGTTTGAGCTGGCGATGGATGTTAAGGAAGAGTTGTTGGGATAGTGTGTCTTAACGCGGGAAGCCTTATCCGAGCTGGCAACGCTGTCCTACATAGACCTGATAAGCGAAGCGCATCAGGCATTGTGTAGGCAGCAGAAATGTCGGATAAGGCACCGCTGATTACTGATACAC  >  NC_000913/3304333‑3304584

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A