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
A8 F1 I2 R1 765 53.2 2691310 93.4% 2513683 103.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,394,469 G→A T597I (ACC→ATC)  yhdP ← DUF3971‑AsmA2 domains protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,394,4690GA100.0% 174.1 / NA 55T597I (ACC→ATC) yhdPDUF3971‑AsmA2 domains protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (28/27);  total (28/27)

AAGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGGTTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACT  >  NC_000913/3394347‑3394586
                                                                                                                          |                                                                                                                     
aaGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCTGCCCAGATTAACGCCATCGATTTTCATCCATAAAcc                                                                                                       <  2:1222107/139‑1 (MQ=255)
  gggCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACcgt                                                                                                     >  2:470683/1‑139 (MQ=255)
     ccAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACcgtcgt                                                                                                  <  1:470683/139‑1 (MQ=255)
         cGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaat                                                                                              >  1:1139604/1‑139 (MQ=255)
         cGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaat                                                                                              >  1:1005494/1‑139 (MQ=255)
                  ccGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAg                                                                                     <  2:1139604/139‑1 (MQ=255)
                     gACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGAtttt                                                                                                                   >  1:859344/1‑106 (MQ=255)
                     gACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGAtttt                                                                                                                   <  2:859344/106‑1 (MQ=255)
                          ttAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                             >  2:485566/1‑139 (MQ=255)
                           tAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATaaa                                                                                                         >  1:269414/1‑110 (MQ=255)
                           tAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATaaa                                                                                                         <  2:269414/110‑1 (MQ=255)
                           tAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATc                                                                            >  1:92307/1‑139 (MQ=255)
                               gTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAgg                                                                        <  1:709963/139‑1 (MQ=255)
                                  aGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATaaa                                                                                                         >  1:1193303/1‑103 (MQ=255)
                                  aGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATaaa                                                                                                         <  2:1193303/103‑1 (MQ=255)
                                  aGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAAcc                                                                                                       >  1:546996/1‑105 (MQ=255)
                                  aGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAAcc                                                                                                       <  2:546996/105‑1 (MQ=255)
                                    cGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgttagt                                                                   <  1:485566/139‑1 (MQ=255)
                                        aaTCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaata                                                                                             <  1:160606/109‑1 (MQ=255)
                                        aaTCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaata                                                                                             >  2:160606/1‑109 (MQ=255)
                                          tCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                             <  1:706844/123‑1 (MQ=255)
                                          tCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                             >  2:706844/1‑123 (MQ=255)
                                                                 tCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGCTAATGCAGGCCAGTCCGGCTGGAAGGCaa                                      >  1:855613/1‑139 (MQ=255)
                                                                   aGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgttagt                                                                   <  1:661243/108‑1 (MQ=255)
                                                                   aGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgttagt                                                                   >  2:661243/1‑108 (MQ=255)
                                                                          aCTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAAt                                                               >  2:192482/1‑105 (MQ=255)
                                                                          aCTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAAt                                                               <  1:192482/105‑1 (MQ=255)
                                                                           cTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATaaa                                                                                                         <  1:477963/62‑1 (MQ=255)
                                                                           cTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATaaa                                                                                                         >  2:477963/1‑62 (MQ=255)
                                                                           cTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaata                                                                                             >  2:707879/1‑74 (MQ=255)
                                                                           cTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaata                                                                                             <  1:707879/74‑1 (MQ=255)
                                                                           cTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAgg                                                                        >  2:1293793/1‑95 (MQ=255)
                                                                           cTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAgg                                                                        <  1:1293793/95‑1 (MQ=255)
                                                                           cTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGtt                            >  2:363823/1‑139 (MQ=255)
                                                                               ggTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaata                                                                                             <  1:933203/70‑1 (MQ=255)
                                                                               ggTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTtaata                                                                                             >  2:933203/1‑70 (MQ=255)
                                                                                gTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCa                       >  1:746896/1‑139 (MQ=255)
                                                                                      ttACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTc                                                                                        <  2:301186/68‑1 (MQ=255)
                                                                                      ttACTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTc                                                                                        >  1:301186/1‑68 (MQ=255)
                                                                                        aCTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                             <  2:129004/77‑1 (MQ=255)
                                                                                        aCTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                             >  1:129004/1‑77 (MQ=255)
                                                                                         cTCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCa              >  2:1120453/1‑139 (MQ=255)
                                                                                          tCGCGCGCACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAg             <  2:92307/139‑1 (MQ=255)
                                                                                              gcgcACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACt         <  2:746896/139‑1 (MQ=255)
                                                                                               cgcACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACcgtcgt                                                                                                  <  2:1083980/49‑1 (MQ=255)
                                                                                               cgcACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACcgtcgt                                                                                                  >  1:1083980/1‑49 (MQ=255)
                                                                                               cgcACGCCGCCCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACtt        >  2:695870/1‑139 (MQ=255)
                                                                                               cgcACGCCGCCCAGATCAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCt                                               >  2:957246/1‑100 (MQ=255)
                                                                                               cgcACGCCGCCCAGATCAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCt                                               <  1:957246/100‑1 (MQ=255)
                                                                                                     ccgccCAGATTAACGCCATCGATTTTCATCCATAACCCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACt  <  1:1267652/139‑1 (MQ=255)
                                                                                                     ccgccCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACt  <  1:695870/139‑1 (MQ=255)
                                                                                                      cgccCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTc                                                                                  >  2:765581/1‑58 (MQ=255)
                                                                                                      cgccCAGATTAACGCCATCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTc                                                                                  <  1:765581/58‑1 (MQ=255)
                                                                                                                       tCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAatat                                                                             >  2:711038/1‑46 (MQ=255)
                                                                                                                       tCGATTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGgttagt                                                                   <  1:1213764/56‑1 (MQ=255)
                                                                                                                          |                                                                                                                     
AAGGGCCAACGGCTTTACCCGGACCTTTAATGTCAGCGTCAATCAGCAGTTTTTCTTTTGAGTAGTCAGGGATCACTGCGGTAAGATTACTCGCGCGCACGCCGCCCAGATTAACGCCATCGGTTTTCATCCATAAACCGTCGTTAATAAAGTCCAGTTCAATATCAAGGTTAGTTAATGCAGGCCAGTCCGGCTGGAAGGCAAACTTCGCGTTGCGCAGCGGCACCAGCACTTCAAACT  >  NC_000913/3394347‑3394586

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A