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 F28 I1 R1 116 49.4 1663006 99.2% 1649701 139.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,015,676 C→T A266V (GCC→GTC)  fliG → flagellar motor switch protein FliG

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,015,6760CT100.0% 96.5 / NA 30A266V (GCC→GTC) fliGflagellar motor switch protein FliG
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (15/15);  total (15/15)

ACGGCGAGCTGGCGCAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCGCAGGTGGAAAACGAACAGAAAGCGATTCTGC  >  NC_000913/2015544‑2015807
                                                                                                                                    |                                                                                                                                   
aCGGCGAGCTGGCGCAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGagcag                                                                                                                              >  1:343360/1‑140 (MQ=255)
 cGGCGAGCTGGCGCAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGagcagc                                                                                                                             <  1:787011/140‑1 (MQ=255)
         tGGCGCAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTgcgc                                                                                                                     >  1:270708/1‑140 (MQ=255)
           gcgcAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCga                                                                                                                   >  1:248138/1‑140 (MQ=255)
                           acgaGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAat                                                                                                   >  1:462457/1‑140 (MQ=255)
                                      cTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCg                                                                                        >  1:660470/1‑140 (MQ=255)
                                        gTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTg                                                                                      >  2:683887/1‑140 (MQ=255)
                                           cGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTgccg                                                                                   <  2:5004/140‑1 (MQ=255)
                                             agaATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTgccgcc                                                                                 >  2:270220/1‑140 (MQ=255)
                                                   tggtggATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATAtt                                                                           >  1:234431/1‑140 (MQ=255)
                                                    ggtggATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTc                                                                          >  2:657281/1‑140 (MQ=255)
                                                             cgacgaTCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGcgacg                                                                 <  2:155226/140‑1 (MQ=255)
                                                                    cGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGc                                                          <  1:174642/140‑1 (MQ=255)
                                                                     gcagcaTTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGcc                                                         <  2:298076/140‑1 (MQ=255)
                                                                      cagcaTTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCa                                                        >  2:133648/1‑140 (MQ=255)
                                                                           ttCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGt                                                   <  1:334799/140‑1 (MQ=255)
                                                                           ttCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGt                                                   >  2:819059/1‑140 (MQ=255)
                                                                             cAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTgg                                                 <  2:248138/140‑1 (MQ=255)
                                                                                   cTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGAtct                                                             <  1:611405/122‑1 (MQ=255)
                                                                                   cTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGAtct                                                             >  2:611405/1‑122 (MQ=255)
                                                                                   cTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGt                                           <  2:480814/140‑1 (MQ=255)
                                                                                      ttGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCg                                        >  1:354987/1‑140 (MQ=255)
                                                                                             aaGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCg                                 <  1:133648/140‑1 (MQ=255)
                                                                                             aaGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCg                                 <  2:660470/140‑1 (MQ=255)
                                                                                              aGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCGc                                <  1:270220/140‑1 (MQ=255)
                                                                                                    ttCCGAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCGCAGGTgg                          <  1:750584/140‑1 (MQ=255)
                                                                                                        gAATCGCTGTTGATCGCGCTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCGCAGGTGGaaaa                      <  2:234431/140‑1 (MQ=255)
                                                                                                                         gcTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCGCAGGTGGAAAACGAACAGAAAGCGATTc     >  1:605400/1‑140 (MQ=255)
                                                                                                                         gcTGAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCGCAGGTGGAAAACGAACAGAAAGCGATTc     >  2:401390/1‑140 (MQ=255)
                                                                                                                            gAAAGGAGTCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCGCAGGTGGAAAACGAACAGAAAGCGATTctgc  <  2:605400/140‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                   
ACGGCGAGCTGGCGCAGAAAATCATCGACGAGATGTTCCTGTTCGAGAATCTGGTGGATGTCGACGATCGCAGCATTCAGCGTCTGTTGCAGGAAGTGGATTCCGAATCGCTGTTGATCGCGCTGAAAGGAGCCGAGCAGCCACTGCGCGAGAAATTCTTGCGCAATATGTCGCAGCGTGCCGCCGATATTCTGCGCGACGATCTCGCCAACCGTGGTCCGGTGCGTCTGTCGCAGGTGGAAAACGAACAGAAAGCGATTCTGC  >  NC_000913/2015544‑2015807

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