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
A5 F28 I1 R1 108 95.2 3177646 99.2% 3152224 139.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,760,000 T→C N175S (AAC→AGC)  sufS ← L‑cysteine desulfurase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,760,0000TC98.2% 200.9 / ‑4.3 56N175S (AAC→AGC) sufSL‑cysteine desulfurase
Reads supporting (aligned to +/- strand):  ref base T (1/0);  new base C (32/23);  total (33/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.47e-01

TAAAAGTCGCAATCCAGCGCCTGAACATCCACCGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGTTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCAACGCGTGCGCAAAGCATCTGCC  >  NC_000913/1759865‑1760135
                                                                                                                                       |                                                                                                                                       
tAAAAGTCGCAATCCAGCGCCTGAACATCCACCGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGga                                                                                                                                     <  2:379763/140‑1 (MQ=255)
 aaaaGTCGCAATCCAGCGCCTGAACATCCACCGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGgag                                                                                                                                    >  1:33212/1‑140 (MQ=255)
     gTCGCAATCCAGCGCCTGAACATCCACCGGACGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACAt                                                                                                                                <  1:707043/140‑1 (MQ=255)
       cGCAATCCAGCGCCTGAACATCCACCGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGa                                                                                                                              >  1:1469907/1‑140 (MQ=255)
        gCAATCCAGCGCCTGAACATCCACCGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAg                                                                                                                             <  1:218140/140‑1 (MQ=255)
                gcgcCTGAACATCCACCGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGcc                                                                                                                     >  1:1408272/1‑140 (MQ=255)
                    cTGAACATCCACCGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCcagca                                                                                                                 <  2:1042602/140‑1 (MQ=255)
                      gAACATCCACCGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAgg                                                                                                               >  1:432372/1‑140 (MQ=255)
                                cGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTtct                                                                                                     >  1:725571/1‑140 (MQ=255)
                                 ggATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTtctc                                                                                                    >  2:796399/1‑140 (MQ=255)
                                  gatgatGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCtca                                                                                                   <  2:693756/140‑1 (MQ=255)
                                     gatgCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCtcatca                                                                                                <  1:245512/140‑1 (MQ=255)
                                      atgCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCaa                                                                                               <  1:1070637/140‑1 (MQ=255)
                                      atgCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCaa                                                                                               >  1:640811/1‑140 (MQ=255)
                                       tgCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCACGCTGGTGCGCAAACGTGATCATTTCCGCCAGTGGCTTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCaaa                                                                                              >  1:672053/1‑140 (MQ=255)
                                         cATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACa                                                                                            >  1:534674/1‑140 (MQ=255)
                                              ccGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTa                                                                                       >  2:1181293/1‑140 (MQ=255)
                                                 ccTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCTAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGc                                                                                    >  2:1302280/1‑140 (MQ=255)
                                                 ccTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGc                                                                                    >  1:1292539/1‑140 (MQ=255)
                                                 ccTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGCGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGc                                                                                    >  1:182506/1‑140 (MQ=255)
                                                  cTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCa                                                                                   >  2:737031/1‑140 (MQ=255)
                                                     aGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCg                                                                                <  2:432372/140‑1 (MQ=255)
                                                     aGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCg                                                                                >  1:501318/1‑140 (MQ=255)
                                                      gcgcCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGt                                                                               >  1:1571527/1‑140 (MQ=255)
                                                       cgcCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGtc                                                                              >  1:318986/1‑140 (MQ=255)
                                                            tCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAg                                                                         <  2:521103/140‑1 (MQ=255)
                                                                 caGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCa                                                                    >  2:1250520/1‑140 (MQ=255)
                                                                         ttGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCa                                                            >  1:1229901/1‑140 (MQ=255)
                                                                         ttGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGCAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCa                                                            >  2:1553959/1‑140 (MQ=255)
                                                                          tGCGCCATGCTGGTGCGCAAGTGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCAt                                                           <  2:157955/140‑1 (MQ=255)
                                                                               cATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGa                                                      <  2:725571/140‑1 (MQ=255)
                                                                               cATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGa                                                      <  2:1408272/140‑1 (MQ=255)
                                                                                 tGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGAtt                                                    >  1:639248/1‑140 (MQ=255)
                                                                                         cgcAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGTTAGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGa                                            >  1:861839/1‑140 (MQ=255)
                                                                                         cgcAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGa                                            >  2:1528302/1‑140 (MQ=255)
                                                                                           cAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATc                                          >  2:1180197/1‑140 (MQ=255)
                                                                                           cAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATc                                          <  2:672053/140‑1 (MQ=255)
                                                                                           cAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATc                                          >  2:28876/1‑140 (MQ=255)
                                                                                           cAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATc                                          >  2:158395/1‑140 (MQ=255)
                                                                                           cAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATc                                          >  1:1314535/1‑140 (MQ=255)
                                                                                           cAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATc                                          >  2:1411692/1‑140 (MQ=255)
                                                                                             aGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATcac                                        >  1:1352893/1‑140 (MQ=255)
                                                                                              gCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATcaca                                       <  2:33212/140‑1 (MQ=255)
                                                                                              gCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATcaca                                       >  1:234430/1‑140 (MQ=255)
                                                                                                gTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACg                                     <  2:1314535/140‑1 (MQ=255)
                                                                                                   aTCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAg                                  >  1:489915/1‑140 (MQ=255)
                                                                                                     cATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGct                                >  1:636371/1‑140 (MQ=255)
                                                                                                     cATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGct                                <  2:404378/140‑1 (MQ=255)
                                                                                                     cATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGct                                <  1:104325/140‑1 (MQ=255)
                                                                                                              cAGTGGATTTTCTGTGCCAAGCACGCTGGAGACATGGGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCaa                       <  1:1466206/140‑1 (MQ=255)
                                                                                                                 tGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCAAcgc                    <  2:1319266/140‑1 (MQ=255)
                                                                                                                 tGGATTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCAAcgc                    <  2:796221/140‑1 (MQ=255)
                                                                                                                    aTTTTCTGTGCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCAACGCGTg                 <  1:925371/140‑1 (MQ=255)
                                                                                                                             gCCAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCAACGCGTGCGCAAAGCa        >  2:1098388/1‑140 (MQ=255)
                                                                                                                               cAAGCACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCAACGCGTGCGCAAAGCATc      <  2:489915/140‑1 (MQ=255)
                                                                                                                                   cACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCAACGCGTGCGCAAAGCATCTGcc  <  1:546026/140‑1 (MQ=255)
                                                                                                                                   cACGCTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCAACGCGTGCGCAAAGCATCTGcc  <  1:1302280/140‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                       
TAAAAGTCGCAATCCAGCGCCTGAACATCCACCGGATGATGCATCACCGCCTGAGCGCCATCCACCAGCACTTTTGCGCCATGCTGGTGCGCAAGCGTGATCATTTCCGCCAGTGGATTTTCTGTGCCAAGCACGTTGGAGACATGAGTAATTGCCAGCAGGCGAGTTTTCTCATCAAACAGCGTAGGCAGCGTCTCCAGTTGCAACGTACCATCGGGATTGAGCGGGATCACACGCAGCTCTGCGCCAACGCGTGCGCAAAGCATCTGCC  >  NC_000913/1759865‑1760135

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A