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
A1 F22 I1 R1 18 65.8 2366602 94.8% 2243538 141.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913_3_hsa_tpiA 2,817,170 C→A E112* (GAA→TAA)  yqaB ← fructose‑1‑P and 6‑phosphogluconate phosphatase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_hsa_tpiA2,817,1700CA98.2% 167.3 / NA 56E112* (GAA→TAA) yqaBfructose‑1‑P and 6‑phosphogluconate phosphatase
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base A (21/33);  total (21/35)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TCGGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGCCT  >  NC_000913_3_hsa_tpiA/2817026‑2817316
                                                                                                                                                |                                                                                                                                                   
tCGGTCTCACGCCCATACGCTTCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTcc                                                                                                                                                <  2:768923/150‑1 (MQ=255)
gcGGTTGCACGCCCATACGCCGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTcc                                                                                                                                                <  2:367411/149‑1 (MQ=255)
   gTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATATTGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCg                                                                                                                                             >  2:898284/1‑150 (MQ=255)
     tGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGtt                                                                                                                                           >  1:4111/1‑150 (MQ=255)
       cACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGGTTATGGTATTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTcc                                                                                                                                         >  1:780719/1‑150 (MQ=255)
         cgtccATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGCTCGGCCGTGACGACGGAGCCAAATTGATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTa                                                                                                                                       <  1:575451/147‑1 (MQ=255)
           cccATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGAAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACa                                                                                                                                     <  2:1017108/150‑1 (MQ=255)
                  gCTGCGCGCACGACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTg                                                                                                                              <  2:740983/150‑1 (MQ=255)
                  gCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTg                                                                                                                              <  2:740806/150‑1 (MQ=255)
                    tGCGCGGACAACAAAAATGTGTGTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTggg                                                                                                                            <  2:453687/150‑1 (MQ=255)
                     gggggcACAACAAAAATGGGTCTGGCGGGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGc                                                                                                                           <  2:77546/146‑1 (MQ=255)
                        ccgtccacaaAAATGTGTCTGGCGCGGGGTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGcgac                                                                                                                        <  1:206882/144‑1 (MQ=255)
                           acagccgaaaTGGGTCCGGCGCGGGGGTATGGTGGTTGACGTGATCGGCAGCGACGACGGCGTCAACATAATGGCGTAAGCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCgacgac                                                                                                                     <  2:421075/143‑1 (MQ=255)
                            caacaaAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGAcc                                                                                                                    <  1:1008904/150‑1 (MQ=255)
                              acaaAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAGATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCAt                                                                                                                  <  2:1048503/150‑1 (MQ=255)
                                aaaaaTGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑c                                                                                                               >  2:91889/1‑150 (MQ=255)
                                         tCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTc                                                                                                      <  1:764364/150‑1 (MQ=255)
                                          cTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTcc                                                                                                     >  2:867632/1‑149 (MQ=255)
                                                    tttATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATcaac                                                                                           <  1:5192/150‑1 (MQ=255)
                                                             tttGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACa                                                                                                                                     <  2:845756/100‑1 (MQ=255)
                                                             tttGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACa                                                                                                                                     >  1:845756/1‑100 (MQ=255)
                                                             tttGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAg                                                                                  <  1:1080814/150‑1 (MQ=255)
                                                                   gTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTc                                                                            >  1:428946/1‑150 (MQ=255)
                                                                   gTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACACCAACAAGAGAAGACGGTTc                                                                            >  2:287378/1‑150 (MQ=255)
                                                                      agcGGCAGGGACGACGGCGTCAAAATAATGGCGTAAGCCCAGGTGGGCCAGCAATGCCCCAGCGATGGCGCTTTAAATCCCCTGTCCTAGAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGACGAAGCGGTTAGAc                                                                         <  2:1018099/148‑1 (MQ=255)
                                                                      aTCGGCAGCGGCGACGGCGTCAAAATAATGGCGTAATCCCAGATGCGCCAGCAATGCCTCAGCGATGGCGCTTTATCTCCCCGTTTCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGAc                                                                         <  2:274031/150‑1 (MQ=255)
                                                                       tCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTcac                                                                                                    <  1:945451/122‑1 (MQ=255)
                                                                       tCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTcac                                                                                                    >  2:945451/1‑122 (MQ=255)
                                                                          gCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTa                                                                     <  1:91889/150‑1 (MQ=255)
                                                                          gCAGCGACGACGGCGCCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTa                                                                     <  2:960355/150‑1 (MQ=255)
                                                                                     ggCGTCAAAATAATGGCGTAATCCCAGTTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCCAATTTTCACCACAGCAACAAGAGGCAGCGGTTCGACGCTATCCATCAGCAt                                                          >  2:1010768/1‑150 (MQ=255)
                                                                                         tCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTACCGCCCATTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATActt                                                      <  1:867632/150‑1 (MQ=255)
                                                                                           aaaaTAATGGCGTAATCCCAGTTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATActtct                                                    <  1:1010768/150‑1 (MQ=255)
                                                                                             cctcctGGAGTGATCCCAGGTGCGCCGCCAATTGCGCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTa                                                  <  1:566321/145‑1 (MQ=255)
                                                                                             aataatGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTGCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTACACCACATCAACAAGAGGAAGCGGTTCAACGCTATCCAGCAGCATActtcttg                                                  >  1:1088996/1‑149 (MQ=255)
                                                                                                   ggCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCtt                                            >  1:145066/1‑150 (MQ=255)
                                                                                                       tAATCCCAGGTGCGCCAGCAATGCCTCAGCGACTGCCCTTCTACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGt                                        <  1:1043380/150‑1 (MQ=255)
                                                                                                         aTCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCcagca                                                              >  2:276857/1‑126 (MQ=255)
                                                                                                         aTCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCcagca                                                              <  1:276857/126‑1 (MQ=255)
                                                                                                             cAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTGTTc                                  >  2:468482/1‑150 (MQ=255)
                                                                                                             cAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACAGCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTATTTc                                  >  2:1055608/1‑150 (MQ=255)
                                                                                                              aGGTGCGCCAGCAATGCCCCAGCGATGGCGCTTTACCTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCa                                 <  2:139552/150‑1 (MQ=255)
                                                                                                                 tGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCAcgc                              <  1:1091624/150‑1 (MQ=255)
                                                                                                                      cAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTaa                         >  1:462613/1‑150 (MQ=255)
                                                                                                                      cAGCAATGCATAAGCGATGGCGCTTTAACTCCACGTTCCTACAGCCATTGGGCGATGACCATG‑CCAACTTTTCACCACAACAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTaa                         <  2:337628/150‑1 (MQ=255)
                                                                                                                          aaTGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAgg                                                                                     >  2:415730/1‑86 (MQ=255)
                                                                                                                          aaTGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAgg                                                                                     <  1:415730/86‑1 (MQ=255)
                                                                                                                             gCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGc                  >  1:65662/1‑150 (MQ=255)
                                                                                                                               cTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCgg                <  2:4111/150‑1 (MQ=255)
                                                                                                                                tCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCggg               >  2:365426/1‑150 (MQ=255)
                                                                                                                                  aGCGATGGCGCTTTACCTCCTCAATCCGACGGCCATTGGGAGAC‑ACCATGAAGAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTc             <  1:566553/150‑1 (MQ=255)
                                                                                                                                    cGATGGCCCTTTATCTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCga           <  1:287378/150‑1 (MQ=255)
                                                                                                                                      acggCGCTTGCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCgaga         <  1:433111/148‑1 (MQ=255)
                                                                                                                                           ccTTTAACCCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGc    <  1:545525/149‑1 (MQ=255)
                                                                                                                                             tttAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTGTCCGGCAGCATACTTCTTCCTGCTTCTGTTTTTTCACTCGCTACCGCATCCGGGCTGAGATcatccc  >  2:240917/1‑145 (MQ=255)
                                                                                                                                             tttAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGCCt  >  1:974448/1‑150 (MQ=255)
                                                                                                                                                |                                                                                                                                                   
TCGGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATG‑CCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGCCT  >  NC_000913_3_hsa_tpiA/2817026‑2817316

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A