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
A25 F36 I0 R2 1302 104.9 4551290 96.3% 4382892 111.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 1,772,475 C→T 6.1% intergenic (+190/‑37) ydiM → / → ydiN putative MFS transporter, membrane protein/putative MFS transporter, membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,772,4750CT 6.1% 208.7 / 4.0 65intergenic (+190/‑37)ydiM/ydiNputative MFS transporter, membrane protein/putative MFS transporter, membrane protein
Reads supporting (aligned to +/- strand):  ref base C (32/29);  new base T (2/2);  total (34/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.83e-01

AAGGAAAATCGCGATCAAAAACAAACTATGACATGCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATA  >  NC_000913/1772347‑1772617
                                                                                                                                |                                                                                                                                              
aaGGAAAATCGCGATCAAAAACAAACTATGACATGCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACg                                                                                                                                         <  1:1093636/136‑1 (MQ=255)
aaGGAAAATCGCGATCAAAAACAAACTATGACATGCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACg                                                                                                                                         >  2:1093636/1‑136 (MQ=255)
             aTCAAAAACAAACTATGACATGCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCtgt                                                                                                                >  4:666744/1‑148 (MQ=255)
                              aCATGCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATa                                                                                               <  3:666744/148‑1 (MQ=255)
                               cATGCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCATCAAGGAGc                                                                                                                   >  1:287747/1‑127 (MQ=255)
                               cATGCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGc                                                                                                                   <  2:287747/127‑1 (MQ=255)
                                  gCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCttt                                                                                                                              >  2:444587/1‑113 (MQ=255)
                                  gCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCttt                                                                                                                              <  1:444587/113‑1 (MQ=255)
                                  gCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTc                                                                                                                             <  2:477433/114‑1 (MQ=255)
                                  gCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTc                                                                                                                             >  1:477433/1‑114 (MQ=255)
                                  gCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCaaa                                                                                                  >  1:1020622/1‑141 (MQ=255)
                                  gCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCaaa                                                                                                  <  2:1020622/141‑1 (MQ=255)
                                   cAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCaa                                                                                                                        >  2:326829/1‑118 (MQ=255)
                                   cAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCaa                                                                                                                        <  1:326829/118‑1 (MQ=255)
                                               aaaCATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCtg                                                                                                                 >  2:108803/1‑113 (MQ=255)
                                               aaaCATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCtg                                                                                                                 <  1:108803/113‑1 (MQ=255)
                                                    tAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTGTGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATg                                                                                                         <  1:450096/116‑1 (MQ=255)
                                                    tAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTGTGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATg                                                                                                         >  2:450096/1‑116 (MQ=255)
                                                     aaaCTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCtt                                                                                                                               >  2:79385/1‑93 (MQ=255)
                                                     aaaCTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCtt                                                                                                                               <  1:79385/93‑1 (MQ=255)
                                                      aaCTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTc                                                                                                                             <  2:42848/94‑1 (MQ=255)
                                                      aaCTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTc                                                                                                                             >  1:42848/1‑94 (MQ=255)
                                                          ttATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGc                                                                   >  1:321111/1‑148 (MQ=255)
                                                                  tGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCttt                                                           <  2:321111/148‑1 (MQ=255)
                                                                   gTACCCAGGGTAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTAt                                                                                                                                  >  1:185983/1‑76 (MQ=255)
                                                                   gTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTAt                                                                                                                                  <  2:185983/76‑1 (MQ=255)
                                                                        cAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATg                                                                                                         <  3:442550/96‑1 (MQ=255)
                                                                        cAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATg                                                                                                         >  4:442550/1‑96 (MQ=255)
                                                                        cAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCtt                                                            >  1:454053/1‑141 (MQ=255)
                                                                        cAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCtt                                                            <  2:454053/141‑1 (MQ=255)
                                                                           ggAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATaa                                                                                              >  2:201175/1‑104 (MQ=255)
                                                                           ggAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATaa                                                                                              <  1:201175/104‑1 (MQ=255)
                                                                           ggAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTAt                                                                         >  4:436022/1‑125 (MQ=255)
                                                                           ggAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTAt                                                                         <  3:436022/125‑1 (MQ=255)
                                                                                atcatcTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGaaaa                                                                                                           <  3:634522/86‑1 (MQ=255)
                                                                                atcatcTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGaaaa                                                                                                           >  4:634522/1‑86 (MQ=255)
                                                                                atcatcTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCa                                                                                   >  4:272837/1‑110 (MQ=255)
                                                                                atcatcTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCa                                                                                   <  3:272837/110‑1 (MQ=255)
                                                                                 tcatcTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGtct                                                                                                      <  1:1049205/90‑1 (MQ=255)
                                                                                 tcatcTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGtct                                                                                                      >  2:1049205/1‑90 (MQ=255)
                                                                                       tCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATg                                                                                                         >  4:557275/1‑81 (MQ=255)
                                                                                       tCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATg                                                                                                         <  3:557275/81‑1 (MQ=255)
                                                                                             taGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATc                                                                        <  3:987937/108‑1 (MQ=255)
                                                                                             taGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATc                                                                        >  4:987937/1‑108 (MQ=255)
                                                                                                tAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGTCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCa                             >  1:406595/1‑148 (MQ=255)
                                                                                                    tATGTAAACCGTCGGAGAACAATACGTATGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCttt                                                                                        <  2:664213/85‑1 (MQ=255)
                                                                                                    tATGTAAACCGTCGGAGAACAATACGTATGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCttt                                                                                        >  1:664213/1‑85 (MQ=255)
                                                                                                    tATGTAAACCGTCGGAGAACAATACGTATGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCttt                                                                                        >  3:679858/1‑85 (MQ=255)
                                                                                                    tATGTAAACCGTCGGAGAACAATACGTATGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCttt                                                                                        <  4:679858/85‑1 (MQ=255)
                                                                                                    tATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCAtt                           >  3:169231/1‑146 (MQ=255)
                                                                                                    tATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCAtt                           <  4:169231/146‑1 (MQ=255)
                                                                                                        tAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCa                                  <  3:1018458/135‑1 (MQ=255)
                                                                                                        tAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCa                                  >  4:1018458/1‑135 (MQ=255)
                                                                                                         aaaCCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGtta                    >  1:163589/1‑148 (MQ=255)
                                                                                                           aCCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCtt                                                                                         >  2:454139/1‑77 (MQ=255)
                                                                                                           aCCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCtt                                                                                         <  1:454139/77‑1 (MQ=255)
                                                                                                           aCCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCa                             >  3:222505/1‑137 (MQ=255)
                                                                                                           aCCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCa                             <  4:222505/137‑1 (MQ=255)
                                                                                                                   agaACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTg           >  2:674174/1‑147 (MQ=255)
                                                                                                                   agaACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTg           <  1:674174/147‑1 (MQ=255)
                                                                                                                     aaCAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGc                                                                                    >  4:320323/1‑72 (MQ=255)
                                                                                                                     aaCAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGc                                                                                    <  3:320323/72‑1 (MQ=255)
                                                                                                                      aCAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCa       >  3:308937/1‑148 (MQ=255)
                                                                                                                        aaTACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGtt                     <  3:1086136/132‑1 (MQ=255)
                                                                                                                        aaTACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGtt                     >  4:1086136/1‑132 (MQ=255)
                                                                                                                           acgtacgGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAata  <  2:163589/148‑1 (MQ=255)
                                                                                                                           acgtacgGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAata  <  2:406595/148‑1 (MQ=255)
                                                                                                                                |                                                                                                                                              
AAGGAAAATCGCGATCAAAAACAAACTATGACATGCAATATTCCTGGAAACATAAACTTTATGCCATGTACCCAGGGAAAATCATCTTCAGTATAGTAATTATGTAAACCGTCGGAGAACAATACGTACGGTAACGAAATTATCTTTCAGCAAGGAGCTGTGAAAATGTCTCAAAATAAGGCTTTCAGCACGCCATTTATCCTGGCTGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATA  >  NC_000913/1772347‑1772617

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A