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 F28 I1 R1 161 75.5 2581324 99.3% 2563254 138.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,821,424 G→C G196G (GGC→GGG)  alaS ← alanine‑‑tRNA ligase/DNA‑binding transcriptional repressor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,821,4240GC100.0% 181.8 / NA 52G196G (GGC→GGG) alaSalanine‑‑tRNA ligase/DNA‑binding transcriptional repressor
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (29/23);  total (29/23)

TCCAGACCCATACCGGTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑GCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGT  >  NC_000913/2821287‑2821556
                                                                                                                                          |                                                                                                                                    
tCCAGACCCATACCGGTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGCTTAACTGCATGTAGACGATGTTCCAGATCTCAATGGAGCGGTCGCCGTCTTCTTCCGGGCCTCCCGGAGG‑ccc                                                                                                                                    >  2:306683/1‑140 (MQ=255)
  cAGACCCATACCGGTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑Ccccc                                                                                                                                  >  2:832913/1‑140 (MQ=255)
  cAGACCCATACCGGTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑Ccccc                                                                                                                                  <  1:510198/140‑1 (MQ=255)
  cAGACCCATACCGGTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑Ccccc                                                                                                                                  >  2:510198/1‑140 (MQ=255)
       ccATACCGGTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCaa                                                                                                                             >  1:682688/1‑140 (MQ=255)
       ccATACCGGTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCaa                                                                                                                             >  2:1072077/1‑140 (MQ=255)
          tACCGGTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAAtg                                                                                                                          <  1:832913/140‑1 (MQ=255)
               gTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTc                                                                                                                     >  1:1235812/1‑140 (MQ=255)
                    tACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGt                                                                                                                <  2:640103/140‑1 (MQ=255)
                     aCAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTg                                                                                                               >  1:1278285/1‑140 (MQ=255)
                         aCGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTTCCGGAGG‑CCCCCCCCAAATGTGGt                                                                                                                      <  1:842673/129‑1 (MQ=255)
                         aCGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCg                                                                                                           >  2:1092025/1‑140 (MQ=255)
                         aCGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCCTCTTCTTCCGGGCTTCCCGGGGG‑CCCCCCCCCAATGTGGTCGCCGTGATCg                                                                                                           >  1:1279288/1‑140 (MQ=255)
                         aCGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGGCGCCGTCTTCTTCCGGGCTTTCCGGAGG‑CCCCCCCCAAATGTGGt                                                                                                                      >  2:842673/1‑129 (MQ=255)
                            gCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTag                                                                                                        >  1:339461/1‑140 (MQ=255)
                                           ccATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCAc                                                                                         >  1:999148/1‑140 (MQ=255)
                                              tCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACggg                                                                                      <  1:895519/140‑1 (MQ=255)
                                                   ccATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCa                                                                                 <  1:1072077/140‑1 (MQ=255)
                                                   ccATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCa                                                                                 >  1:1174379/1‑140 (MQ=255)
                                                      tCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGGAGCGGGCGCCGTCTTCTTCCGGGGGTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACgg                                                                              >  2:1114541/1‑140 (MQ=255)
                                                        ggCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGAc                                                                            <  1:356037/140‑1 (MQ=255)
                                                        ggCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGAc                                                                            >  2:356037/1‑140 (MQ=255)
                                                        ggCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGAc                                                                            <  2:1235812/140‑1 (MQ=255)
                                                             ggCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAgtg                                                                       <  1:113110/140‑1 (MQ=255)
                                                               cGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTc                                                                     <  2:151751/140‑1 (MQ=255)
                                                                         gCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGc                                                           <  2:316765/140‑1 (MQ=255)
                                                                            tGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAg                                                        <  1:57705/140‑1 (MQ=255)
                                                                                   gATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGt                                                 <  2:682688/140‑1 (MQ=255)
                                                                                    aTGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGt                                                 >  1:1205902/1‑139 (MQ=255)
                                                                                    aTGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGt                                                 <  2:1205902/139‑1 (MQ=255)
                                                                                    aTGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTc                                                >  1:497750/1‑140 (MQ=255)
                                                                                    aTGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTc                                                >  2:143508/1‑140 (MQ=255)
                                                                                         ccAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCATGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATg                                           >  2:1169098/1‑140 (MQ=255)
                                                                                                 cAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGgc                                   <  2:1174379/140‑1 (MQ=255)
                                                                                                 cAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGgc                                   >  1:1196035/1‑140 (MQ=255)
                                                                                                  aaTGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGgcg                                  <  2:1278285/140‑1 (MQ=255)
                                                                                                  aaTGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGgcg                                  >  1:859647/1‑140 (MQ=255)
                                                                                                  aaTGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGgcg                                  <  2:339461/140‑1 (MQ=255)
                                                                                                   aTGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGGCCCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGgcg                                  <  2:801398/140‑1 (MQ=255)
                                                                                                    tGTAGCGGTCGCCGTCTTCTTCCGGGCTCCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCa                                >  1:218800/1‑140 (MQ=255)
                                                                                                       aGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCt                             >  2:841197/1‑140 (MQ=255)
                                                                                                         cGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCttt                           >  1:938198/1‑140 (MQ=255)
                                                                                                         cGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCttt                           >  1:633088/1‑140 (MQ=255)
                                                                                                         cGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCttt                           >  2:162225/1‑140 (MQ=255)
                                                                                                            tCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCAATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGtt                        >  1:1199897/1‑140 (MQ=255)
                                                                                                                cGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCt                             <  1:833754/131‑1 (MQ=255)
                                                                                                                cGTCTTCTTCCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCt                             >  2:833754/1‑131 (MQ=255)
                                                                                                                     tcttcCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGAt               <  2:111723/140‑1 (MQ=255)
                                                                                                                      cttcCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATg              <  2:938198/140‑1 (MQ=255)
                                                                                                                      cttcCGGGCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATg              <  1:1092025/140‑1 (MQ=255)
                                                                                                                            ggCTTCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGaata        >  1:265704/1‑140 (MQ=255)
                                                                                                                               ttCCCGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAataata     >  1:858414/1‑140 (MQ=255)
                                                                                                                                  ccGGAGG‑CCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGt  <  2:135502/140‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                    
TCCAGACCCATACCGGTATCTACAGACGGCTTCGGCAGCGGTTCCATCGTGCCATCGGCCTGGCGGTTGAACTGCATGAAGACGATGTTCCAGATCTCAATGTAGCGGTCGCCGTCTTCTTCCGGGCTTCCCGGAGG‑GCCCCCCCAAATGTGGTCGCCGTGATCGTAGAAGATTTCGGTGCACGGGCCGCACGGACCAGTGTCACCCATCTGCCAGAAGTTGTCAGATGCGTATGGCGCACCTTTGTTATCGCCGATGCGAATAATACGT  >  NC_000913/2821287‑2821556

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A