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
A9 F1 I2 R1 760 52.7 2744488 90.2% 2475528 105.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,906,662 (A)5→4 coding (399/810 nt) rlmA ← 23S rRNA m(1)G745 methyltransferase, SAM‑dependent

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,906,6580A.100.0% 203.0 / NA 49coding (403/810 nt)rlmA23S rRNA m(1)G745 methyltransferase, SAM‑dependent
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (26/23);  total (26/23)

CCCAGCCGCCGGGCTTCACTACTCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACACAAAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATACCCTTCACCAC  >  NC_000913/1906541‑1906780
                                                                                                                     |                                                                                                                          
cccAGCCGCCGGGCTTCACTACTCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACACaaaa                                                                                                                         <  2:436552/121‑1 (MQ=255)
cccAGCCGCCGGGCTTCACTACTCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACACaaaa                                                                                                                         >  1:436552/1‑121 (MQ=255)
    gccgccGGGCTTCACTACTCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCt                                                                                                                 >  2:525330/1‑124 (MQ=255)
    gccgccGGGCTTCACTACTCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCt                                                                                                                 <  1:525330/124‑1 (MQ=255)
    gccgccGGGCTTCACTACTCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTcg                                                                                                  >  1:1298299/1‑139 (MQ=255)
    gccgccGGGCTTCACTACTCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTcg                                                                                                  >  1:1200038/1‑139 (MQ=255)
        ccgGGCTTCACTACTCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTcgccgc                                                                                              <  2:1298299/139‑1 (MQ=255)
                   tactCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCg                                                                                   <  2:1200038/139‑1 (MQ=255)
                         tGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCt                                                                             <  1:1210896/139‑1 (MQ=255)
                          gCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCtt                                                                            >  2:514888/1‑139 (MQ=255)
                           cTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCt                                                                                 <  2:568923/133‑1 (MQ=255)
                           cTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCt                                                                                 >  1:568923/1‑133 (MQ=255)
                                       cTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGa                                                               >  2:767443/1‑139 (MQ=255)
                                          tACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCa                                                            >  1:412838/1‑139 (MQ=255)
                                            cacGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCaaa                                                          >  2:1323234/1‑139 (MQ=255)
                                               ggCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACgt                                                       >  2:690435/1‑139 (MQ=255)
                                                 cgcgTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACgtgg                                                     >  2:426867/1‑139 (MQ=255)
                                                 cgcgTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACgtgg                                                     >  2:746863/1‑139 (MQ=255)
                                                 cgcgTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACgtgg                                                     >  1:42631/1‑139 (MQ=255)
                                                   cgTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACgtggtg                                                   >  1:501990/1‑139 (MQ=255)
                                                   cgTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACgtggtg                                                   >  1:90999/1‑139 (MQ=255)
                                                                tatGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACg                                      >  2:216117/1‑139 (MQ=255)
                                                                  tGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCa                                    <  1:514888/139‑1 (MQ=255)
                                                                    gCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGc                                     >  2:491528/1‑136 (MQ=255)
                                                                    gCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGc                                     <  1:491528/136‑1 (MQ=255)
                                                                     cGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACACaaaagtga                                                                                                                     <  1:1225028/56‑5 (MQ=255)
                                                                     cGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACACaaaagtga                                                                                                                     >  2:1225028/1‑52 (MQ=255)
                                                                      gTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATc                                                                   <  1:1258170/104‑1 (MQ=255)
                                                                      gTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATc                                                                   >  2:1258170/1‑104 (MQ=255)
                                                                       tCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGc                               >  2:773557/1‑139 (MQ=255)
                                                                       tCCATAATGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGc                               >  1:465653/1‑139 (MQ=255)
                                                                             cTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGc                         <  2:1143653/139‑1 (MQ=255)
                                                                               ggTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCgt                       <  2:412838/139‑1 (MQ=255)
                                                                               ggTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCgt                       <  1:97478/139‑1 (MQ=255)
                                                                               ggTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCgt                       <  1:214036/139‑1 (MQ=255)
                                                                                gTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCgtg                      <  1:690435/139‑1 (MQ=255)
                                                                                   tCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCgtgtgt                   >  1:490413/1‑139 (MQ=255)
                                                                                   tCGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCgtgtgt                   >  2:1372239/1‑139 (MQ=255)
                                                                                    cGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTg                                                                                                                >  1:431290/1‑45 (MQ=39)
                                                                                    cGGAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTg                                                                                                                <  2:431290/45‑1 (MQ=39)
                                                                                      gAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCaa                             <  1:235646/126‑1 (MQ=255)
                                                                                      gAAAACGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCaa                             >  2:235646/1‑126 (MQ=255)
                                                                                       aaaaCGGCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTaa               <  1:767443/139‑1 (MQ=255)
                                                                                            ggCAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATAccc          <  2:42631/139‑1 (MQ=255)
                                                                                              cAAACGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATACCCtt        <  2:1124653/139‑1 (MQ=255)
                                                                                                 aCGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATACCCTTcac     <  2:735157/139‑1 (MQ=255)
                                                                                                 aCGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATACCCTTcac     >  2:1041798/1‑139 (MQ=255)
                                                                                                 aCGGTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATACCCTTcac     >  2:222045/1‑139 (MQ=255)
                                                                                                    gTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATACCCTTcaccac  <  2:1007252/139‑1 (MQ=255)
                                                                                                    gTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATACCCTTcaccac  <  1:874367/139‑1 (MQ=255)
                                                                                                    gTGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATACCCTTcaccac  <  1:1372239/139‑1 (MQ=255)
                                                                                                     tGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCt                                                                                          <  1:774337/50‑1 (MQ=255)
                                                                                                     tGGCTGGAAGCGACAC‑AAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCt                                                                                          >  2:774337/1‑50 (MQ=255)
                                                                                                                     |                                                                                                                          
CCCAGCCGCCGGGCTTCACTACTCGTGCTAATTCTTCTGCTTTACACGGCGCGTAAATACGTATTATGGCGTCCATACTGGTATCGGAAAACGGCAAACGGTGGCTGGAAGCGACACAAAAAGTGACCTGCGGATAGCGTTTCGCCGCCGCTTTTATCGCTACCTTCGAAACATCCAGACCAAACGTGGTGATTTCGGGCAACGCATCGGCAAATGCGTGTGTGTAATACCCTTCACCAC  >  NC_000913/1906541‑1906780

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A