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
A34 F30 I1 R1 17 31.2 1061324 99.4% 1054956 139.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,785,421 C→A V54V (GTC→GTA)  gpmM → 2,3‑bisphosphoglycerate‑independent phosphoglycerate mutase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,785,4210CA100.0% 110.3 / NA 33V54V (GTC→GTA) gpmM2,3‑bisphosphoglycerate‑independent phosphoglycerate mutase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (18/15);  total (18/15)

CTGGTGATTCTGGATGGCTATGGCTATCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTCGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATCAAAGATCGCGCTTTCTTTGC  >  NC_000913/3785287‑3785543
                                                                                                                                      |                                                                                                                          
cTGGTGATTCTGGATGGCTATGGCTATCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCt                                                                                                                       >  1:255364/1‑140 (MQ=255)
  ggTGATTCTGGATGGCTATGGCTATCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGc                                                                                                                     >  1:435840/1‑140 (MQ=255)
   gTGATTCTGGATGGCTATGGCTATCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGcc                                                                                                                    >  1:127121/1‑140 (MQ=255)
        tCTGGATGGCTATGGCTATCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGAcc                                                                                                               >  1:226488/1‑140 (MQ=255)
          tGGATGGCTATGGCTATCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGt                                                                                                             <  1:31739/140‑1 (MQ=255)
                   atggctatCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGt                                                                                                    <  1:344129/140‑1 (MQ=255)
                      gctatCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGCCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAAc                                                                                                 >  1:153760/1‑140 (MQ=255)
                          tCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCg                                                                                             >  1:449836/1‑140 (MQ=255)
                           cgcgAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGa                                                                                            >  1:432187/1‑140 (MQ=255)
                           cgcgAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGa                                                                                            >  2:2790/1‑140 (MQ=255)
                                  aaCAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGc                                                                                     <  2:86401/140‑1 (MQ=255)
                                               cGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAgg                                                                                      >  1:162106/1‑126 (MQ=255)
                                               cGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAgg                                                                                      <  2:162106/126‑1 (MQ=255)
                                                         aGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTgccggccg                                                              <  2:127121/140‑1 (MQ=255)
                                                          gTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGc                                                             <  1:367870/140‑1 (MQ=255)
                                                              tAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCg                                                         >  2:443251/1‑140 (MQ=255)
                                                                    cccGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATc                                                   <  1:377477/140‑1 (MQ=255)
                                                                        gTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGa                                               >  1:276780/1‑140 (MQ=255)
                                                                              gATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGAc                                         <  2:286737/140‑1 (MQ=255)
                                                                                   aCTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTc                                    >  1:372999/1‑140 (MQ=255)
                                                                                      gtgGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTgg                                 <  1:443251/140‑1 (MQ=255)
                                                                                       tgGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGa                                >  2:416891/1‑140 (MQ=255)
                                                                                       tgGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGa                                >  1:454603/1‑140 (MQ=255)
                                                                                         ggCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACg                              >  2:292/1‑140 (MQ=255)
                                                                                            cAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTg                           <  2:449836/140‑1 (MQ=255)
                                                                                                 gTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATc                      >  1:287755/1‑140 (MQ=255)
                                                                                                           ccTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATCAAAGATcgcg            <  2:153105/140‑1 (MQ=255)
                                                                                                            cTAATCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATCAAAGATCgcgc           >  1:465555/1‑140 (MQ=255)
                                                                                                               aTCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATCAAAGATCGCGcttt        <  2:235851/140‑1 (MQ=255)
                                                                                                                tCGACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATCAAAGATCGCGctttc       <  2:372999/140‑1 (MQ=255)
                                                                                                                  gACGCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATCAAAGATCGCGctttctt     <  2:465555/140‑1 (MQ=255)
                                                                                                                     gCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATCAAAGATCGCGCTTTCTTTGc  <  1:44588/140‑1 (MQ=255)
                                                                                                                     gCTTCCGGTCTGGAAGTAGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATCAAAGATCGCGCTTTCTTTGc  >  2:8815/1‑140 (MQ=255)
                                                                                                                                      |                                                                                                                          
CTGGTGATTCTGGATGGCTATGGCTATCGCGAAGAACAGCAGGATAACGCCATTTTTAGTGCTAAAACCCCGGTAATGGATGCACTGTGGGCCAATCGTCCGCATACCCTAATCGACGCTTCCGGTCTGGAAGTCGGTCTGCCTGACCGTCAGATGGGTAACTCCGAAGTAGGCCACGTTAACCTGGGTGCCGGCCGCATCGTGTATCAGGACCTGACTCGTCTGGACGTTGAAATCAAAGATCGCGCTTTCTTTGC  >  NC_000913/3785287‑3785543

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A