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
A11 F28 I1 R1 134 60.5 2175152 94.0% 2044642 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,014,272 T→C R348R (CGT→CGC)  fliF → flagellar basal‑body MS‑ring and collar protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,014,2720TC100.0% 154.2 / NA 43R348R (CGT→CGC) fliFflagellar basal‑body MS‑ring and collar protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (16/27);  total (16/27)

CGGTTATCCGGGCGGCGTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGTAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCGTGGTGAATTACAAAACCTTGCCAGATGGCAAACCG  >  NC_000913/2014137‑2014407
                                                                                                                                       |                                                                                                                                       
cGGTTATCGGGGGGGCGTACGGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGAAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCCGCAATAGTGGGCCGCgcagca                                                                                                                                     <  2:769355/140‑1 (MQ=255)
         ggggggCGTACGGGGGGCGTTGTCGAATCACCCGGCACCGGCAAAAAACGCGCCAATCAGCCCCCCCCGGGAAAATCAAAAAAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGa                                                                                                                            <  2:526693/140‑1 (MQ=255)
             ggcgTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGa                                                                                                                        <  2:107215/140‑1 (MQ=255)
              gcgTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGaa                                                                                                                       <  2:195278/140‑1 (MQ=255)
              gcgTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGaa                                                                                                                       <  1:999286/140‑1 (MQ=255)
                gtccggggggCGTTGTCGAATCAACCGGCACCTGCAAATAACGCGCAAATCAGCACGCCCCCGGAAAATAAAAAAAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAAc                                                                                                                     <  2:766445/135‑1 (MQ=255)
                gTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAAc                                                                                                                     <  2:282687/140‑1 (MQ=255)
                 tcccGGGGGCGTTGTCAAACCAACCGGCCCCTGCAAATAACGCGCAAACCAGCCCGCCCCCGGAAAATCAAAAAAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAAcc                                                                                                                    <  2:855329/138‑1 (MQ=255)
                    cGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCTCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGt                                                                                                                 <  1:471710/140‑1 (MQ=255)
                         gCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTa                                                                                                            >  2:4180/1‑140 (MQ=255)
                         gCGATGCCGAATCAACCGGCACCTGCGAATAACCCGCCACTCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTa                                                                                                            >  2:435947/1‑140 (MQ=255)
                                       aCCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCa                                                                                              >  1:981330/1‑140 (MQ=255)
                                        ccGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCAc                                                                                             >  2:14840/1‑140 (MQ=255)
                                         cGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCAcc                                                                                            >  1:266781/1‑140 (MQ=255)
                                          ggCACCTGCGAATAACGCGCCAATCAGCCCGCCCCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCa                                                                                           <  2:290652/140‑1 (MQ=255)
                                          ggCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCa                                                                                           <  1:903393/140‑1 (MQ=255)
                                             aCCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTc                                                                                        <  1:4180/140‑1 (MQ=255)
                                              ccTGCGAATAACGCGCAAATCAGCACGCCTCCGGCAAAAAAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCg                                                                                       <  1:1065628/140‑1 (MQ=255)
                                                 gCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCa                                                                                    >  2:1071295/1‑140 (MQ=255)
                                                   gAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATa                                                                                  <  1:29958/140‑1 (MQ=255)
                                                         cgcgCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCaaaa                                                                            >  1:524957/1‑140 (MQ=255)
                                                         cgcgCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCaaaa                                                                            >  1:276296/1‑140 (MQ=255)
                                                           cgcCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATg                                                                          >  1:96588/1‑140 (MQ=255)
                                                                aTCAGCCCGCCCCCGACAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGt                                                                     <  1:810769/140‑1 (MQ=255)
                                                                          cTCGGGAAAATAAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGAtgtg                                                           <  1:435947/140‑1 (MQ=255)
                                                                          cTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGAtgtg                                                           >  2:407935/1‑140 (MQ=255)
                                                                            ccGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCa                                                         >  1:263862/1‑140 (MQ=255)
                                                                             cGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCaa                                                        <  1:830306/140‑1 (MQ=255)
                                                                                    tCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGt                                                 <  2:524957/140‑1 (MQ=255)
                                                                                    tCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGt                                                 <  2:981330/140‑1 (MQ=255)
                                                                                    tCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGt                                                 >  1:961752/1‑140 (MQ=255)
                                                                                    aaaaaaaaACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGt                                                 <  2:276296/138‑1 (MQ=255)
                                                                                     aaaaaTAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTc                                                <  1:1071295/139‑1 (MQ=255)
                                                                                             ccGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCgg                                        <  1:531108/140‑1 (MQ=255)
                                                                                             ccGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCgg                                        <  1:14840/140‑1 (MQ=255)
                                                                                                ccAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCg                                     >  1:551174/1‑140 (MQ=255)
                                                                                                   gctgcagGCGAGCACCACCAGCAATAGTGGTCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCgtgg                                  <  2:666360/137‑1 (MQ=255)
                                                                                                     agcagGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCgtggtg                                <  2:266781/140‑1 (MQ=255)
                                                                                                     agcagGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCgtggtg                                <  2:15274/140‑1 (MQ=255)
                                                                                                     agcagGCGAGCACCACCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCgtggtg                                <  2:96588/140‑1 (MQ=255)
                                                                                                               caccacCAGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCGTGGTGAATTACaaaa                      >  1:230699/1‑140 (MQ=255)
                                                                                                                    ccaGCAATAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCGTGGTGAATTACAAAACCTTg                 >  2:666196/1‑140 (MQ=255)
                                                                                                                           tAGTGGGCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCGTGGTGAATTACAAAACCTTGCCAGATg          >  1:469774/1‑140 (MQ=255)
                                                                                                                               gggCCGCGCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCGTGGTGAATTACAAAACCTTGCCAGATGGCaa      <  2:263862/140‑1 (MQ=255)
                                                                                                                                   cgcgCAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCGTGGTGAATTACAAAACCTTGCCAGATGGCAAACCg  >  2:548292/1‑140 (MQ=255)
                                                                                                                                       |                                                                                                                                       
CGGTTATCCGGGCGGCGTACCGGGGGCGTTGTCGAATCAACCGGCACCTGCGAATAACGCGCCAATCAGCACGCCTCCGGCAAATCAAAATAACCGCCAGCAGCAGGCGAGCACCACCAGCAATAGTGGGCCGCGTAGCACACAGCGGAATGAAACCAGTAACTACGAAGTCGATCGCACCATTCGTCATACCAAAATGAACGTGGGCGATGTGCAACGTCTGTCAGTCGCGGTCGTGGTGAATTACAAAACCTTGCCAGATGGCAAACCG  >  NC_000913/2014137‑2014407

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