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
A10 F28 I1 R1 180 66.5 2263572 99.4% 2249990 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,104,564 A→G V174A (GTC→GCC)  wbbJ ← putative acyl transferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,104,5640AG92.2% 150.3 / 3.3 51V174A (GTC→GCC) wbbJputative acyl transferase
Reads supporting (aligned to +/- strand):  ref base A (2/2);  new base G (27/20);  total (29/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.40e-01

GCTGCCAAAAATTTTTTCAAAATGGTAAATGGACCGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGACAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTGGCCAATTACAACAGCTGA  >  NC_000913/2104427‑2104694
                                                                                                                                         |                                                                                                                                  
gctgcCAAAAATTTTTTAAAAATGGTAAATGGACCGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCa                                                                                                                                  <  2:745826/140‑1 (MQ=255)
   gcCAAAAATTTTTTCAAAATGGTAAATGGACCGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGACAGTa                                                                                                                               >  2:415087/1‑140 (MQ=255)
             ttttCAAAATGGTAAATGGACCGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGaa                                                                                                                     <  2:669856/140‑1 (MQ=255)
             ttttCAAAATGGTAAATGGACCGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGACAGTATTTTCGGGaa                                                                                                                     <  1:415087/140‑1 (MQ=255)
                       ggTAAATGGACCGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACctct                                                                                                           <  1:18351/140‑1 (MQ=255)
                                aCCGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGa                                                                                                  >  2:1065995/1‑140 (MQ=255)
                                aCCGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGa                                                                                                  >  2:986942/1‑140 (MQ=255)
                                 ccGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGaa                                                                                                 <  2:1122802/140‑1 (MQ=255)
                                 ccGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGaa                                                                                                 >  1:1122802/1‑140 (MQ=255)
                                  cGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAAt                                                                                                >  1:8292/1‑140 (MQ=255)
                                     cAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTgg                                                                                             >  2:574382/1‑140 (MQ=255)
                                       gTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGgcg                                                                                           <  1:1077920/140‑1 (MQ=255)
                                       gTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGACTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGACAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGgcg                                                                                           <  1:499064/140‑1 (MQ=255)
                                                 tGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGa                                                                                 <  1:1065995/140‑1 (MQ=255)
                                                  gACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGgcg                                                                                           <  2:107500/129‑1 (MQ=255)
                                                  gACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGgcg                                                                                           >  1:107500/1‑129 (MQ=255)
                                                           aacaacGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTAcc                                                                       <  1:829453/140‑1 (MQ=255)
                                                                     aTGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGtt                                                             <  2:4466/140‑1 (MQ=255)
                                                                      tGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCAtt                                                                          >  2:554693/1‑126 (MQ=255)
                                                                      tGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCAtt                                                                          <  1:554693/126‑1 (MQ=255)
                                                                      tGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTATCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTc                                                            >  2:341520/1‑140 (MQ=255)
                                                                           tttCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGc                                                       >  1:606534/1‑140 (MQ=255)
                                                                           tttCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGc                                                       >  2:1077947/1‑140 (MQ=255)
                                                                            ttCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCa                                                      >  1:849763/1‑140 (MQ=255)
                                                                                cATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAAc                                                  >  1:176596/1‑140 (MQ=255)
                                                                                     tttGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTca                                             <  2:849763/140‑1 (MQ=255)
                                                                                           ctcATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGTATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATtct                                       >  1:1002967/1‑140 (MQ=255)
                                                                                             cATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCa                                     <  2:606534/140‑1 (MQ=255)
                                                                                             cATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCa                                     >  2:432239/1‑140 (MQ=255)
                                                                                               tGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCAcc                                   >  1:574043/1‑140 (MQ=255)
                                                                                               tGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTATCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCAcc                                   <  1:341520/140‑1 (MQ=255)
                                                                                                gATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCAccc                                  <  1:582959/140‑1 (MQ=255)
                                                                                                   tGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACccaac                               >  2:81578/1‑140 (MQ=255)
                                                                                                    gTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACccaacc                              >  1:454892/1‑140 (MQ=255)
                                                                                                     tATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCAcc                                   <  1:434753/134‑1 (MQ=255)
                                                                                                     tATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCAcc                                   >  2:434753/1‑134 (MQ=255)
                                                                                                        ttCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAAc                          >  2:235145/1‑140 (MQ=255)
                                                                                                        ttCTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAAc                          >  2:485828/1‑140 (MQ=255)
                                                                                                        ttCTTTATGATTTTTGCTGGTACTCCCGCAATGGAAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTCCCAGGCAACACCGTCACATTCTCACCCAACCAAAc                          >  2:784922/1‑140 (MQ=255)
                                                                                                          cTTTATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAAccc                        >  2:46239/1‑140 (MQ=255)
                                                                                                           tttATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCct                       >  1:1010556/1‑140 (MQ=255)
                                                                                                             tATGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCctct                     >  1:715149/1‑140 (MQ=255)
                                                                                                               tGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTgg                   >  2:494373/1‑140 (MQ=255)
                                                                                                               tGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTgg                   >  2:676657/1‑140 (MQ=255)
                                                                                                               tGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTgg                   <  1:969315/140‑1 (MQ=255)
                                                                                                               tGATTTTTGCTGGTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTgg                   <  1:574382/140‑1 (MQ=255)
                                                                                                                           gTACTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTGGCCAATTacaaca       >  1:194654/1‑140 (MQ=255)
                                                                                                                            tACTCCCGCAATGACAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTGGCCAATTACAACAg      >  1:868073/1‑140 (MQ=255)
                                                                                                                              cTCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTGGCCAATTACAACAGCt    <  2:176596/140‑1 (MQ=255)
                                                                                                                               tCCCGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTGGCCAATTACAACAGCTg   <  1:991755/140‑1 (MQ=255)
                                                                                                                                cccGCAATGGCAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTGGCCAATTACAACAGCTGa  <  2:8292/140‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                  
GCTGCCAAAAATTTTTTCAAAATGGTAAATGGACCGCCAGTGGTAAAATTGACCGCAGAAACAACGACTATGCTTTTTCCCATAATTTGGTCTCATGATTGTATTTCTTTATGATTTTTGCTGGTACTCCCGCAATGACAGTATTTTCGGGAATAGAACCTCTAACAACAGAATTGGCGCCGACTACGACTCCATTACCAATAATTGTTCCAGGCAAAACCGTCACATTCTCACCCAACCAAACCCTCTGGCCAATTACAACAGCTGA  >  NC_000913/2104427‑2104694

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