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
A11 F1 I1 R1 757 76.1 3598070 93.4% 3360597 108.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,818,584 G→A *275* (TAG→TAA)  dinD → DNA damage‑inducible protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,818,5840GA97.0% 211.6 / ‑1.1 67coding (825/825 nt)dinDDNA damage‑inducible protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (31/34);  minor base . (1/1);  total (32/35)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.90e-01

ACACACTTTGACGTGGGTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAGCAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCTCAGTTTTAACCTATTTTTTCTTATGCA  >  NC_000913/3818450‑3818715
                                                                                                                                      |                                                                                                                                   
acacacTTTGACGTGGGTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGa                                                                                                                                 >  2:383643/1‑139 (MQ=255)
 cacacTTTGACGTGGGTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGaa                                                                                                                                >  1:163689/1‑139 (MQ=255)
    acTTTGACGTGGGTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACt                                                                                                                             >  1:1359633/1‑139 (MQ=255)
      tttGACGTGGGTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTaa                                                                                                                           >  2:233803/1‑139 (MQ=255)
              gggTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCtt                                                                                                                   >  2:528473/1‑139 (MQ=255)
              gggTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCtt                                                                                                                   >  1:939517/1‑139 (MQ=255)
               ggTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCttt                                                                                                                  >  2:1511240/1‑139 (MQ=255)
                gTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGaa                                                                                                                                <  1:652822/124‑1 (MQ=255)
                gTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGaa                                                                                                                                >  2:652822/1‑124 (MQ=255)
                  cGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTttg                                                                                                               <  1:528473/139‑1 (MQ=255)
                  cGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTttg                                                                                                               <  1:957730/139‑1 (MQ=255)
                   gCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTttgt                                                                                                              <  2:163689/139‑1 (MQ=255)
                      aGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGttga                                                                                                           <  1:18496/139‑1 (MQ=255)
                       ggTGAGGCAAACCATTCA‑GAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGttgatt                                                                                                         <  2:1371489/139‑1 (MQ=255)
                                  ccATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCg                                                                                               <  2:939517/139‑1 (MQ=255)
                                  ccATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCg                                                                                               <  2:1304978/139‑1 (MQ=255)
                                             cTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTttg                                                                                                               >  1:1246157/1‑112 (MQ=255)
                                             cTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTttg                                                                                                               <  2:1246157/112‑1 (MQ=255)
                                             cTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGcc                                                                                    <  1:1511240/139‑1 (MQ=255)
                                              ttGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCa                                                                                   <  2:1345436/139‑1 (MQ=255)
                                              ttGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCa                                                                                   <  2:801374/139‑1 (MQ=255)
                                                ggCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAAc                                                                                                                       <  1:965088/101‑1 (MQ=255)
                                                ggCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAAc                                                                                                                       >  2:965088/1‑101 (MQ=255)
                                                  cGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGt                                                                               >  1:1695385/1‑139 (MQ=255)
                                                      aCCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAg                                                                           <  1:1236853/139‑1 (MQ=255)
                                                            ccTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGcc                                                                                    >  1:709042/1‑124 (MQ=255)
                                                            ccTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGcc                                                                                    <  2:709042/124‑1 (MQ=255)
                                                                aggagTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGaa                                                                 >  2:1390012/1‑139 (MQ=255)
                                                                 ggagTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAac                                                                >  1:1129379/1‑139 (MQ=255)
                                                                    gTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGt                                                                         <  1:460880/127‑1 (MQ=255)
                                                                    gTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGt                                                                         >  2:460880/1‑127 (MQ=255)
                                                                    gTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAAcaca                                                             <  2:1359633/139‑1 (MQ=255)
                                                                     ttGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAGACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACaa                                                            <  2:1129379/139‑1 (MQ=255)
                                                                     ttGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACaa                                                            <  2:1695385/139‑1 (MQ=255)
                                                                       gCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAActct                                                                                                                    <  1:883594/81‑1 (MQ=255)
                                                                       gCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAActct                                                                                                                    >  2:883594/1‑81 (MQ=255)
                                                                          gACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCt                                                       <  1:1390012/139‑1 (MQ=255)
                                                                           aCCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTa                                                      >  1:445130/1‑139 (MQ=255)
                                                                                       aacATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGttgatt                                                                                                         <  2:794514/74‑1 (MQ=255)
                                                                                       aacATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGttgatt                                                                                                         >  1:794514/3‑76 (MQ=255)
                                                                                       aGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACct                                          >  2:363788/1‑139 (MQ=255)
                                                                                              aGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTttg                                                                                                               <  1:240615/63‑1 (MQ=255)
                                                                                              aGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTttg                                                                                                               >  2:240615/1‑63 (MQ=255)
                                                                                              aGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCtttt                                   <  1:363788/139‑1 (MQ=255)
                                                                                                   ttGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTgaga                                                                                                     >  2:1426124/1‑68 (MQ=255)
                                                                                                   ttGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTgaga                                                                                                     <  1:1426124/68‑1 (MQ=255)
                                                                                                   ttGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTccccc                              >  2:133621/1‑139 (MQ=255)
                                                                                                   ttGGAAAACAGTGTAAAAATTACAGAGAAGAAATA‑CAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCa                                                                                   <  2:1505592/85‑1 (MQ=255)
                                                                                                   ttGGAAAACAGTGTAAAAATTACAGAGAAGAAATA‑CAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCa                                                                                   >  1:1505592/1‑85 (MQ=255)
                                                                                                    tGGAAAACAGTGTAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCt                             <  1:233803/139‑1 (MQ=255)
                                                                                                             gtgtAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGcc                                                                                    >  1:706350/1‑75 (MQ=255)
                                                                                                             gtgtAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGcc                                                                                    <  2:706350/75‑1 (MQ=255)
                                                                                                             gtgtAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCt                                                       <  1:557075/104‑1 (MQ=255)
                                                                                                             gtgtAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCt                                                       >  2:557075/1‑104 (MQ=255)
                                                                                                             gtgtAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCTCAGTTTTaa                    >  1:1587506/1‑139 (MQ=255)
                                                                                                             atgtAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCTCAGTTTTaa                    >  1:1044856/2‑139 (MQ=255)
                                                                                                              tgtAAAAATTACAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCTCAGTTTTAAc                   >  1:1743164/1‑139 (MQ=255)
                                                                                                                        aCAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTg                                                                        <  2:1286814/76‑1 (MQ=255)
                                                                                                                        aCAGAGAAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTg                                                                        >  1:1286814/1‑76 (MQ=255)
                                                                                                                           gagaAGAAATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCTCAGTTTTAACCTATTTTTTCTTa      <  1:133621/139‑1 (MQ=255)
                                                                                                                              aagaaATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCg                                                                                               >  1:254927/1‑47 (MQ=255)
                                                                                                                              aagaaATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCg                                                                                               <  2:254927/47‑1 (MQ=255)
                                                                                                                              aagaaATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCTCAGTTTTAACCTAtttttt          >  1:1763525/1‑132 (MQ=255)
                                                                                                                              aagaaATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCTCAGTTTTAACCTAtttttt          <  2:1763525/132‑1 (MQ=255)
                                                                                                                               agaaATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCTCAGTTTTAACCTATTTTTTCTTATGCa  <  2:1743164/139‑1 (MQ=255)
                                                                                                                                gaaATAACAGAAACTAATAACTCTTTTTGTTGATTGAGACACCCg                                                                                               >  1:1027747/1‑45 (MQ=255)
                                                                                                                                gaaATAACAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCg                                                                                               <  2:1027747/45‑1 (MQ=255)
                                                                                                                                      |                                                                                                                                   
ACACACTTTGACGTGGGTCGCAAGGTGAGGCAAACCATTCAGGAACTTGGCGGAACCATGCCTGAGGAGTTGCCGACCCCGCAGGTCAGCATCAAGCAGTTGGAAAACAGTGTAAAAATTACAGAGAAGAAATAGCAGAAACTAAAAACTCTTTTTGTTGATTGAGACACCCGATGCGTAAGCCAAGGTCCAGGTGCAGTGAACACAATGGCTAAATATTGCACCTTTCTTTTCCCCCTCAGTTTTAACCTATTTTTTCTTATGCA  >  NC_000913/3818450‑3818715

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A