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 4,538,785 C→T *239* (TAG→TAA)  nanC ← N‑acetylnuraminic acid outer membrane channel protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,538,7850CT100.0% 183.6 / NA 57*239* (TAG→TAA) nanCN‑acetylnuraminic acid outer membrane channel protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (27/30);  total (27/30)

TCAATTGCTCCGGTACCACTTTTAAATGGCACAGGAGTTTCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTACTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACA  >  NC_000913/4538656‑4538920
                                                                                                                                 |                                                                                                                                       
tCAATTGCTCCGGTACCACTTTTAAATGGCACAGGAGTTTCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTa                                                                                                                                <  1:1017647/139‑1 (MQ=255)
  aaTTGCTCCGGTACCACTTTTAAATGGCACAGGAGTTTCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTaaa                                                                                                                              <  2:1281032/139‑1 (MQ=255)
            gTACCACTTTTAAATGGCACAGGAGTTTCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCa                                                                                                                    <  2:799666/139‑1 (MQ=255)
             tACCACTTTTAAATGGCACAGGAGTTTCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCaa                                                                                                                   <  1:780021/139‑1 (MQ=255)
              aCCACTTTTAAATGGCACAGGAGTTTCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAAt                                                                                                                  <  1:69090/139‑1 (MQ=255)
                             cacaGGAGTTTCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGATTAAATGACACACCAATGCGGTAACTGTTTTc                                                                                                   >  1:1226596/1‑139 (MQ=255)
                               caGGAGTTTCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCg                                                                                                 <  1:1057902/139‑1 (MQ=255)
                                       tCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTa                                                                                         >  1:604584/1‑139 (MQ=255)
                                       tCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTa                                                                                         >  2:84336/1‑139 (MQ=255)
                                               tACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTa                                                                                                                                <  2:343256/92‑1 (MQ=255)
                                               tACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTa                                                                                                                                >  1:343256/1‑92 (MQ=255)
                                                 cAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGt                                                                               <  2:604584/139‑1 (MQ=255)
                                                   gACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTg                                                                             >  2:780419/1‑139 (MQ=255)
                                                         tttGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAaca                                                                       >  2:1366645/1‑139 (MQ=255)
                                                                        gCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAgg                                                        <  2:558361/139‑1 (MQ=255)
                                                                            tcatGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGt                                                    <  2:332989/139‑1 (MQ=255)
                                                                             catGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCg                                                                                                 >  1:1104878/1‑93 (MQ=255)
                                                                             catGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCg                                                                                                 <  2:1104878/93‑1 (MQ=255)
                                                                             catGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTc                                                   <  1:84336/139‑1 (MQ=255)
                                                                             catGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTc                                                   >  2:750732/1‑139 (MQ=255)
                                                                              atGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGATTAAATGACACACCAATGCGGTAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCa                                                  <  2:1226596/139‑1 (MQ=255)
                                                                               tGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCat                                                 <  1:1366645/139‑1 (MQ=255)
                                                                                       aGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCGATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCtatg                                         >  2:932182/1‑139 (MQ=255)
                                                                                       aGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATaaa                                                                                            >  1:1091586/1‑88 (MQ=255)
                                                                                       aGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATaaa                                                                                            <  2:1091586/88‑1 (MQ=255)
                                                                                       aGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGt                                                             <  2:205354/119‑1 (MQ=255)
                                                                                       aGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGt                                                             >  1:205354/1‑119 (MQ=255)
                                                                                       aGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCtatg                                         >  1:298118/1‑139 (MQ=255)
                                                                                       aGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCtatg                                         >  1:86657/1‑139 (MQ=255)
                                                                                       aGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCtatg                                         >  2:396851/1‑139 (MQ=255)
                                                                                        gcgcCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTaaa                                                                         >  1:1163378/1‑106 (MQ=255)
                                                                                        gcgcCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTaaa                                                                         <  2:1163378/106‑1 (MQ=255)
                                                                                         cgcCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCtatgta                                       <  1:780419/139‑1 (MQ=255)
                                                                                              ttATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGAt                                                                                                             >  1:352960/1‑64 (MQ=255)
                                                                                              ttATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGAt                                                                                                             <  2:352960/64‑1 (MQ=255)
                                                                                              ttATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTg                                                                                   <  2:558075/90‑1 (MQ=255)
                                                                                              ttATTGTTTTATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTg                                                                                   >  1:558075/1‑90 (MQ=255)
                                                                                                      ttATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAgg                                                        >  2:617162/1‑109 (MQ=255)
                                                                                                      ttATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAgg                                                        <  1:617162/109‑1 (MQ=255)
                                                                                                      ttATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTc                                                   >  1:516109/1‑114 (MQ=255)
                                                                                                      ttATTCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTc                                                   <  2:516109/114‑1 (MQ=255)
                                                                                                         ttCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATaa                                                                                                           <  1:754845/55‑1 (MQ=255)
                                                                                                         ttCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATaa                                                                                                           >  2:754845/1‑55 (MQ=255)
                                                                                                         ttCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTc                                                            <  2:1063971/102‑1 (MQ=255)
                                                                                                         ttCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTc                                                            >  1:1063971/1‑102 (MQ=255)
                                                                                                         ttCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTa                                                      <  2:1102988/108‑1 (MQ=255)
                                                                                                         ttCATTGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTa                                                      >  1:1102988/1‑108 (MQ=255)
                                                                                                             ttGTGACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCa                   <  1:396851/139‑1 (MQ=255)
                                                                                                              tgtgACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTc                                                   >  2:1031558/1‑106 (MQ=255)
                                                                                                              tgtgACTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTc                                                   <  1:1031558/106‑1 (MQ=255)
                                                                                                                  aCTGTCTCCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATgg              <  1:750732/139‑1 (MQ=255)
                                                                                                                      tctcCTGTCTATTACAGTTTAAATGACACACCAATGCTATAACTGTTTTCCGATAAATTATCTCTGCCATTGTAACCACACTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTAtt          >  1:647124/1‑139 (MQ=255)
                                                                                                                      tctcCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCata                 >  2:1233439/1‑132 (MQ=255)
                                                                                                                      tctcCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCata                 <  1:1233439/132‑1 (MQ=255)
                                                                                                                        tcCTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGt        >  2:242345/1‑139 (MQ=255)
                                                                                                                          cTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCgg                         <  2:165398/120‑1 (MQ=255)
                                                                                                                          cTGTCTATTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCgg                         >  1:165398/1‑120 (MQ=255)
                                                                                                                              ctattaCAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACa  <  2:298118/139‑1 (MQ=255)
                                                                                                                                 |                                                                                                                                       
TCAATTGCTCCGGTACCACTTTTAAATGGCACAGGAGTTTCCGGTAATACAGACGCGTTTGCGGCAAATGAAGCCATCATGATAGCAAGCGCCGTTATTGTTTTATTCATTGTGACTGTCTCCTGTCTACTACAGTTTAAATGACACACCAATGCGATAACTGTTTTCCGATAAATTATCTCTGCCGTTGTAAACACCCTGACGGTCAAGGTAGTCATATTCTATGTATGGCGTAATATCGGGCGTCATATGGTATTGTAGAACA  >  NC_000913/4538656‑4538920

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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