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
A7 F1 I1 R1 776 60.0 3074904 90.1% 2770488 104.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,250,629 (C)5→6 coding (210/1071 nt) dhaK ← dihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,250,6241.C98.2% 192.7 / ‑3.4 57coding (215/1071 nt)dhaKdihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit
Reads supporting (aligned to +/- strand):  ref base . (0/1);  new base C (23/33);  total (23/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.44e-01

GTCGCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑G‑CCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCGGATCCTGATGC  >  NC_000913/1250489‑1250755
                                                                                                                                         |                                                                                                                                   
gTCGCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑G‑ccc                                                                                                                                  >  2:1474910/1‑139 (MQ=255)
   gCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑G‑cccccc                                                                                                                               >  1:992148/1‑138 (MQ=255)
              gTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATccc                                                                                                                     <  1:1474910/139‑1 (MQ=255)
                  aGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGa                                                                                                                 <  2:646471/139‑1 (MQ=255)
                  aGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGa                                                                                                                 <  2:1223675/139‑1 (MQ=255)
                  aGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGAGTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGa                                                                                                                 <  2:1308531/139‑1 (MQ=255)
                    aaTATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               <  1:60409/139‑1 (MQ=255)
                    aaTATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               <  1:1234792/139‑1 (MQ=255)
                      tatCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGa                                                                                                             <  1:906089/139‑1 (MQ=255)
                        tCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               <  2:451167/135‑1 (MQ=255)
                        tCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               >  1:451167/1‑135 (MQ=255)
                        tCGCCGGTGTAATTTTTGATAAGCAACAGTACACCTTCGCCGCCATCAACTTGAATGGCGCATTCAAAGATTTTATCCGGCGTCGGAGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGata                                                                                                           >  2:753767/1‑139 (MQ=255)
                         cGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               >  2:113349/1‑134 (MQ=255)
                         cGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               <  1:113349/134‑1 (MQ=255)
                            cGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAAc                                                                                                       <  2:697069/139‑1 (MQ=255)
                              gtgtAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑G‑ccccc                                                                                                                                <  1:1373070/111‑1 (MQ=255)
                              gtgtAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑G‑ccccc                                                                                                                                >  2:1373070/1‑111 (MQ=255)
                                  aaTTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGt                                                                                                 <  2:992148/139‑1 (MQ=255)
                                       ttGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATc                                                                                            <  1:1399128/139‑1 (MQ=255)
                                         gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATc                                                                                            >  2:853931/1‑137 (MQ=255)
                                         gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATc                                                                                            <  1:853931/137‑1 (MQ=255)
                                              tCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCgt                                                                                     >  2:906439/1‑139 (MQ=255)
                                                            tCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCgtgt                                                                                   <  2:1424830/127‑1 (MQ=255)
                                                            tCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCgtgt                                                                                   >  1:1424830/1‑127 (MQ=255)
                                                            tCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgc                                                                            >  1:45635/1‑134 (MQ=255)
                                                            tCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgc                                                                            <  2:45635/134‑1 (MQ=255)
                                                            tCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCa                                                                       >  1:59872/1‑139 (MQ=255)
                                                             cgccgcCATCAACTTGCGTGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGACAATTTCGCCCGGAGAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCAc                                                                      >  2:879196/1‑139 (MQ=255)
                                                               ccgccATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGa                                                                                                                 >  2:1290949/1‑94 (MQ=255)
                                                               ccgccATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGa                                                                                                                 <  1:1290949/94‑1 (MQ=255)
                                                               ccgccATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCAccc                                                                    <  1:906439/139‑1 (MQ=255)
                                                                    aTCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGc                                                                                                                          >  2:290005/1‑80 (MQ=255)
                                                                    aTCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGc                                                                                                                          <  1:290005/80‑1 (MQ=255)
                                                                        aCTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAgg                                                           <  2:59872/139‑1 (MQ=255)
                                                                            gCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGa                                                                                                                 >  1:966561/1‑81 (MQ=255)
                                                                            gCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGa                                                                                                                 <  2:966561/81‑1 (MQ=255)
                                                                            gCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGa                                                       >  1:584370/1‑139 (MQ=255)
                                                                                  cgcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGAcagc                                                              <  2:786123/126‑1 (MQ=255)
                                                                                  cgcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGAcagc                                                              >  1:786123/1‑126 (MQ=255)
                                                                                   gcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGAC‑CCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTcc                                                <  2:646700/139‑1 (MQ=255)
                                                                                   gcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               <  2:122933/76‑1 (MQ=255)
                                                                                   gcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               >  1:122933/1‑76 (MQ=255)
                                                                                     aTTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTg                                              <  1:879196/139‑1 (MQ=255)
                                                                                            gATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAgg                                       >  1:1064459/1‑139 (MQ=255)
                                                                                              ttttATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                         >  2:1528396/1‑103 (MQ=255)
                                                                                              ttttATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                         <  1:1528396/103‑1 (MQ=255)
                                                                                                 tATCGGGCGTCGGTGA‑GTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACca                                                                                                     >  1:948665/1‑71 (MQ=255)
                                                                                                 tATCGGGCGTCGGTGA‑GTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACca                                                                                                     <  2:948665/71‑1 (MQ=255)
                                                                                                       gCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTc                            >  1:918658/1‑139 (MQ=255)
                                                                                                         gTCGGTGAGGTGAAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCgg                          <  2:1484652/139‑1 (MQ=255)
                                                                                                                 ggtgaAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               <  2:1321323/46‑1 (MQ=255)
                                                                                                                 ggtgaAAATTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGAcc                                                                                                               >  1:1321323/1‑46 (MQ=255)
                                                                                                                     aaaaTTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAAc                                                                                                       <  2:597429/50‑1 (MQ=255)
                                                                                                                     aaaaTTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAAc                                                                                                       >  1:597429/1‑50 (MQ=255)
                                                                                                                     aaaaTTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                         <  2:1530839/80‑1 (MQ=255)
                                                                                                                     aaaaTTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgccgc                                                                         >  1:1530839/1‑80 (MQ=255)
                                                                                                                      aaaTTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCg             <  2:918658/139‑1 (MQ=255)
                                                                                                                       aaTTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGa                                                                                                             >  1:1020966/1‑42 (MQ=255)
                                                                                                                       aaTTTCGCCCGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGa                                                                                                             <  2:1020966/42‑1 (MQ=255)
                                                                                                                                cGGACAG‑GCCCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCGGATCCTGATg   <  2:1064459/139‑1 (MQ=255)
                                                                                                                                 ggACAG‑GCCCCCCGAAACCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCTGCCACCCGACAGCAGGGCGACTTTTCCTGCATCAGGGGCATCAGCTCGGGTGACATACACCGGATCCTGATgg  <  1:942500/139‑2 (MQ=255)
                                                                                                                                         |                                                                                                                                   
GTCGCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAG‑G‑CCCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACCGGATCCTGATGC  >  NC_000913/1250489‑1250755

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