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
A2 F28 I1 R1 155 60.3 2039550 99.3% 2025273 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,621,165 T→C intergenic (‑28/‑167) eamA ← / → ydeE cysteine/O‑acetylserine exporter EamA/dipeptide exporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,621,1650TC100.0% 172.3 / NA 49intergenic (‑28/‑167)eamA/ydeEcysteine/O‑acetylserine exporter EamA/dipeptide exporter
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (23/26);  total (23/26)

AGCGGTGGCATGTTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTATTTCTTTACATCTCTAAAACA  >  NC_000913/1621040‑1621299
                                                                                                                              |                                                                                                                                      
accGGTGGTGTTTTATGAGGCCCCACTTTGATGACCAAAAAATTAACCCCCCATACGCCCA‑TACCGATGGGCGCCACCCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTa                                                                                                                          <  2:726894/138‑1 (MQ=255)
 gggggggCATTTTA‑GAAACCCCATTTTGATGCCCAAAAATTTTACCCCCCATACCCCCCCTCCC‑AGAAGCGCCACCCCCCCTTTTTTCCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGc                                                                                                                        <  2:505945/135‑1 (MQ=255)
           tttATGAAGCCCCTCTTTGATGACCACAAATTTTACCCCCCATACGCCCCCTACC‑AGTAGCGCCAACCCCCCATTTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTAc                                                                                                               <  2:519892/139‑1 (MQ=255)
             tATGAACCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACtt                                                                                                             <  1:903537/140‑1 (MQ=255)
                 aaGCCCCACTCTGATGACCACAAAATTTAGCCCACATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCt                                                                                                         >  1:626395/1‑140 (MQ=255)
                    ccccACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTa                                                                                                      >  1:519892/1‑140 (MQ=255)
                     ccctttttGATGCCAAAAAATTTTACCCCCCATCCCCCCCCTCCC‑AGTAGCGCCAACCCCCCTTTTTTCCGCGACTTTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTaa                                                                                                     <  2:507611/135‑1 (MQ=255)
                      ccACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAAc                                                                                                    >  1:507611/1‑140 (MQ=255)
                      ccACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAAc                                                                                                    >  2:147379/1‑140 (MQ=255)
                      ccACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAAc                                                                                                    >  2:195894/1‑140 (MQ=255)
                      ccACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAAc                                                                                                    >  2:695107/1‑140 (MQ=255)
                       cACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACa                                                                                                   >  2:403291/1‑140 (MQ=255)
                              atgaCCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGAtt                                                                                            >  1:998816/1‑140 (MQ=255)
                                 aCCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGt                                                                                         <  1:672485/140‑1 (MQ=255)
                                   cacaAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTa                                                                                       >  1:824820/1‑140 (MQ=255)
                                     aaaaaTTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGt                                                                                     <  1:695107/139‑1 (MQ=255)
                                             aGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGtt                                                                             >  2:270896/1‑140 (MQ=255)
                                             aGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGtt                                                                             >  2:594293/1‑140 (MQ=255)
                                                 cccATACGCCCCCTCCC‑AGTAGCCCCAACCCCCCATCTTTTCGCGCCATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTacga                                                                         <  1:735102/140‑1 (MQ=255)
                                                 cccATACGACCACTACC‑AGTAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTacga                                                                         <  2:443221/140‑1 (MQ=255)
                                                           cccTACC‑AGTACCCCCACCCCCCCATTTTTTCGCGACTTTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAAt                                                               <  2:1010581/138‑1 (MQ=255)
                                                            aCTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATg                                                              >  1:714655/1‑140 (MQ=255)
                                                            aCTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATg                                                              <  1:403291/140‑1 (MQ=255)
                                                             cTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATgc                                                             >  1:874396/1‑140 (MQ=255)
                                                              tACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATgcg                                                            >  2:161465/1‑140 (MQ=255)
                                                               aCC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATgcgc                                                           >  2:622342/1‑140 (MQ=255)
                                                                     taacgcCAACCCCCTATCTTTTCGCGACATCCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATa                                                      <  2:626395/137‑1 (MQ=255)
                                                                     tAGCGCCACCCCCCCTTTTTTTCGCGATATTTTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATa                                                      <  1:740922/140‑1 (MQ=255)
                                                                     tAGCGCCAACCCCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATa                                                      <  1:836437/140‑1 (MQ=255)
                                                                     tAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATa                                                      >  1:670822/1‑140 (MQ=255)
                                                                     tAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATa                                                      <  1:622342/140‑1 (MQ=255)
                                                                     tAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATa                                                      <  1:195894/140‑1 (MQ=255)
                                                                      aGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATaa                                                     >  1:938825/1‑140 (MQ=255)
                                                                        cgcCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGt                                                   <  1:270896/140‑1 (MQ=255)
                                                                         gcCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCAt                                                                   >  1:623258/1‑123 (MQ=255)
                                                                         gcCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCAt                                                                   <  2:623258/123‑1 (MQ=255)
                                                                         gcCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTc                                                  >  1:262474/1‑140 (MQ=255)
                                                                         gcCAACACCCCATCCTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTc                                                  >  1:956738/1‑140 (MQ=255)
                                                                          ccAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCg                                                 <  1:788601/140‑1 (MQ=255)
                                                                                              gACATTCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGcc                             <  1:147379/140‑1 (MQ=255)
                                                                                                  ttCTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGc                         <  2:998816/140‑1 (MQ=255)
                                                                                                    cTACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTa                       <  2:670822/140‑1 (MQ=255)
                                                                                                     tACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTAt                      <  1:594293/140‑1 (MQ=255)
                                                                                                     tACCGCCTCTGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTAt                      <  2:824820/140‑1 (MQ=255)
                                                                                                            tctGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTATTTCTTTa               >  2:383415/1‑140 (MQ=255)
                                                                                                            tctGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTATTTCTTTa               <  1:689928/140‑1 (MQ=255)
                                                                                                            tctGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTATTTCTTTa               >  2:637681/1‑140 (MQ=255)
                                                                                                            tctGAATTTCATCTTTTGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTATTTCTTTa               >  2:689928/1‑140 (MQ=255)
                                                                                                                         ttttGCAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTATTTCTTTACATCTCTaaaaca  <  1:208250/140‑1 (MQ=255)
                                                                                                                              |                                                                                                                                      
AGCGGTGGCATGTTATGAAGCCCCACTTTGATGACCACAAAATTTAGCCCCCATACGACCACTACC‑AGTAGCGCCAACACCCCATCTTTTCGCGACATTCTACCGCCTCTGAATTTCATCTTTTGTAAGCAATCAACTTAGCTGAATTTACTTTTCTTTAACAGTTGATTCGTTAGTCGCCGGTTACGACGGCATTAATGCGCAAATAAGTCGCTATACTTCGGATTTTTGCCATGCTATTTCTTTACATCTCTAAAACA  >  NC_000913/1621040‑1621299

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A