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
A6 F1 I2 R1 758 59.3 2864096 93.9% 2689386 105.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,501,096 T→C L396P (CTC→CCC)  frlA → putative fructoselysine transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,501,0960TC97.0% 227.6 / ‑0.5 66coding (1187/1338 nt)frlAputative fructoselysine transporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base C (35/29);  minor base . (1/1);  total (36/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.08e-01

CCTGCTGGGTTATTTCACCCTGGTGATGTGTTTCAAAAATACCCTCACCTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCTCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGAAGCGTAGCCGC  >  NC_000913/3500965‑3501226
                                                                                                                                   |                                                                                                                                  
ccTGCTGGGTTATTTCACCCTGGTGATGTGTTTCAAAAATACCCTCACCTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCAtt                                                                                                                             >  2:1428030/1‑139 (MQ=255)
     tgGGTTATTTCACCCTGGTGATGTGTTTCAAAAATACCCTCACCTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTc                                                                                                                        <  1:1428030/139‑1 (MQ=255)
          tATTTCACCCTAGTGATGTGTTTCAAAAATACCCTCACCTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGcc                                                                                                                   <  1:927647/139‑1 (MQ=255)
              tCACCCTGGTGATGTGTTTCAAAAATACCCTCACCTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCAt                                                                                                               >  2:865823/1‑139 (MQ=255)
                              tttCAAAAATACCCTCACCTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAAcc                                                                                               >  2:165611/1‑139 (MQ=255)
                                              aCCTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGa                                                                               >  2:1092114/1‑139 (MQ=255)
                                               ccTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCt                                                                                                    <  1:1129799/117‑1 (MQ=255)
                                               ccTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCt                                                                                                    >  2:1129799/1‑117 (MQ=255)
                                                  tCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTcc                                                                           >  2:6088/1‑139 (MQ=255)
                                                   cGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAg                                                                                                                     <  2:1266978/96‑1 (MQ=255)
                                                   cGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAg                                                                                                                     >  1:1266978/1‑96 (MQ=255)
                                                     gCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCt                                                                                                    <  1:510367/111‑1 (MQ=255)
                                                     gCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCt                                                                                                    >  2:510367/1‑111 (MQ=255)
                                                          atcatcTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCt                                                                                                    <  2:473469/106‑1 (MQ=255)
                                                          atcatcTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCt                                                                                                    >  1:473469/1‑106 (MQ=255)
                                                          atcatcTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAAcc                                                                                               >  2:628020/1‑111 (MQ=255)
                                                          atcatcTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAAcc                                                                                               <  1:628020/111‑1 (MQ=255)
                                                                tGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTgcg                                                             <  1:6088/139‑1 (MQ=255)
                                                                  gtgtCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGcc                                                           <  1:865823/139‑1 (MQ=255)
                                                                    gtCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGt                                                         <  1:1092114/139‑1 (MQ=255)
                                                                     tCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCAcc                                                                                 >  2:359577/1‑114 (MQ=255)
                                                                     tCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCAcc                                                                                 <  1:359577/114‑1 (MQ=255)
                                                                     tCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTc                                                        >  2:1096368/1‑139 (MQ=255)
                                                                     tCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTc                                                        <  1:1096368/139‑1 (MQ=255)
                                                                     tCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTc                                                        <  1:165611/139‑1 (MQ=255)
                                                                        tAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTc                                                                                                                        >  2:361508/1‑72 (MQ=255)
                                                                        tAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTc                                                                                                                        <  1:361508/72‑1 (MQ=255)
                                                                        tAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATc                                                     <  2:1370585/139‑1 (MQ=255)
                                                                        tAAACGCGACGATTACAAACCGCTGTGGCGTAATCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTCTTTCTTGGCACCGATTCCCGGCCTTATCTCCGCCGTCacc                                                     >  2:250294/1‑137 (MQ=255)
                                                                            cgcgACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTc                                                                                                                        >  2:1417940/1‑68 (MQ=255)
                                                                            cgcgACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTc                                                                                                                        <  1:1417940/68‑1 (MQ=255)
                                                                            cgcgACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTTGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATc                                                     >  1:758599/1‑135 (MQ=255)
                                                                            cgcgACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTc                                                                            >  1:453488/1‑112 (MQ=255)
                                                                            cgcgACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTc                                                                            <  2:453488/112‑1 (MQ=255)
                                                                            cgcgACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATc                                                     <  2:758599/135‑1 (MQ=255)
                                                                             gcgACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTAt                                                <  1:474876/139‑1 (MQ=255)
                                                                               gacgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTc                                                                                                                        <  2:1367156/65‑1 (MQ=255)
                                                                               gacgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTc                                                                                                                        >  1:1367156/1‑65 (MQ=255)
                                                                               gacgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGtt                                                  >  2:1133731/1‑135 (MQ=255)
                                                                               gacgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGtt                                                  <  1:1133731/135‑1 (MQ=255)
                                                                                acgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCCTTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGc                                             >  2:1131878/1‑139 (MQ=255)
                                                                                acgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCC‑CGCCa                                                                                                                               <  2:537311/56‑1 (MQ=255)
                                                                                acgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCC‑CGCCa                                                                                                                               >  1:537311/1‑56 (MQ=255)
                                                                                 cgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTAt                                                                  >  1:1406463/1‑117 (MQ=255)
                                                                                 cgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTAt                                                                  <  2:1406463/117‑1 (MQ=255)
                                                                                 cgaTTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCt                                            <  2:483203/139‑1 (MQ=255)
                                                                                              cTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCtt                                                                                             <  2:1010404/77‑1 (MQ=255)
                                                                                              cTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCtt                                                                                             >  1:1010404/1‑77 (MQ=255)
                                                                                                  ggCGTACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTa                           >  2:1296264/1‑139 (MQ=255)
                                                                                                      tACTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGcc                       >  2:503894/1‑139 (MQ=255)
                                                                                                        cTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGc                                                                                                                    >  1:1046848/1‑44 (MQ=255)
                                                                                                        cTCCGGCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGc                                                                                                                    <  2:1046848/44‑1 (MQ=255)
                                                                                                             gCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTggg                >  1:518831/1‑139 (MQ=255)
                                                                                                             gCTTTCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTggg                >  1:374952/1‑139 (MQ=255)
                                                                                                                ttCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGa             >  2:1268537/1‑139 (MQ=255)
                                                                                                                 tCGGGCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGaa            >  2:456386/1‑139 (MQ=255)
                                                                                                                   gggCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTc                                                        <  2:33259/93‑1 (MQ=255)
                                                                                                                   gggCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTc                                                        >  1:33259/1‑93 (MQ=255)
                                                                                                                   gggCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGAAGc          >  1:1373994/1‑139 (MQ=255)
                                                                                                                     gCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTAt                                                >  1:534878/1‑99 (MQ=255)
                                                                                                                     gCTGATGACCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTAt                                                <  2:534878/99‑1 (MQ=255)
                                                                                                                      cTGATGACCACCCCCGCCATCGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGAAGCGTa       >  1:1055302/1‑139 (MQ=255)
                                                                                                                        gatgaCCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGaa            >  1:996911/1‑132 (MQ=255)
                                                                                                                        gatgaCCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGaa            <  2:996911/132‑1 (MQ=255)
                                                                                                                        gatgaCCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGAAGCGTAgc     >  2:1228044/1‑139 (MQ=255)
                                                                                                                           gaCCACCCCCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGAAGCGTAgccgc  <  1:695256/139‑1 (MQ=255)
                                                                                                                                   |                                                                                                                                  
CCTGCTGGGTTATTTCACCCTGGTGATGTGTTTCAAAAATACCCTCACCTTCGGCTCCATCATCTGGTGTCGTAAACGCGACGATTACAAACCGCTGTGGCGTACTCCGGCTTTCGGGCTGATGACCACCCTCGCCATTGCGTCAAGCCTCATTCTGGTCGCCTCAACCTTTGTCTGGGCACCGATTCCCGGCCTTATCTGCGCCGTCATCGTTATTGCTACTGGTCTGCCTGCTTACGCCTTCTGGGCGAAGCGTAGCCGC  >  NC_000913/3500965‑3501226

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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