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
A1 F1 I2 R1 730 35.1 2107516 91.4% 1926269 80.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,102,267 C→A D196Y (GAC→TAC)  trmI ← tRNA m(7)G46 methyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,102,2670CA100.0% 121.0 / NA 34D196Y (GAC→TAC) trmItRNA m(7)G46 methyltransferase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (8/26);  total (8/26)

TTGTTCAAATTTCGTCACCGGACGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCT  >  NC_000913/3102190‑3102344
                                                                             |                                                                             
ttgttCAAATTTCGTCACCGGACGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAAt                                                                            <  1:571485/81‑1 (MQ=255)
     cAAATTTCGTCACCGGACGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATagaa                                                                        <  1:571486/80‑1 (MQ=255)
       aaTTTCGTCACCGGACGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATagaagaa                                                                     <  2:571487/81‑2 (MQ=255)
           tCGTCACCGGACGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATc                                                                  <  2:571488/80‑1 (MQ=255)
             gTCACCGGACGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACt                                                               <  2:571489/81‑1 (MQ=255)
                     aCGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCat                                                       <  2:571491/81‑1 (MQ=255)
                     aCGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCat                                                       <  1:571490/81‑1 (MQ=255)
                     aCGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCat                                                       <  1:571492/81‑1 (MQ=255)
                       gTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCatat                                                     >  2:571545/1‑81 (MQ=255)
                       gTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCatat                                                     <  2:571493/81‑1 (MQ=255)
                         gATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGt                                                   >  1:571519/1‑81 (MQ=255)
                          aTGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATAtttt                                                  >  2:571542/1‑81 (MQ=255)
                          aTGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGtt                                                  >  2:571547/1‑81 (MQ=255)
                          aTGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGtt                                                  <  2:571494/81‑1 (MQ=255)
                            gCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTcc                                                >  2:571548/1‑81 (MQ=255)
                              cGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGc                                              <  1:571495/81‑1 (MQ=255)
                                     ggTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGt                                       <  2:571496/81‑1 (MQ=255)
                                      gTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGtt                                      <  2:571497/81‑1 (MQ=255)
                                      gTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGtt                                      <  2:571498/81‑1 (MQ=255)
                                       tACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTc                                     <  2:571499/81‑1 (MQ=255)
                                           tAATCATTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAg                                 <  2:571500/81‑1 (MQ=255)
                                                aTTGCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAgtcgg                             <  2:571501/80‑1 (MQ=255)
                                                   gCTCTCTGACAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGc                         >  2:571541/1‑81 (MQ=255)
                                                           aCAGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGa                 <  2:571502/81‑1 (MQ=255)
                                                             aGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAAt               <  1:571504/81‑1 (MQ=255)
                                                             aGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAAt               <  1:571505/81‑1 (MQ=255)
                                                             aGGTTTTTATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAAt               <  2:571503/81‑1 (MQ=255)
                                                                  tttATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGcc          >  1:571549/1‑81 (MQ=255)
                                                                   ttATAACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGcc          <  2:571506/80‑1 (MQ=255)
                                                                      taACCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGccccc       <  1:571507/80‑1 (MQ=255)
                                                                       aaCCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGccccc       >  1:571543/1‑79 (MQ=255)
                                                                        aCCGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAg    <  1:571508/81‑1 (MQ=255)
                                                                          cGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCt  <  1:571510/81‑1 (MQ=255)
                                                                          cGTAAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCt  <  1:571509/81‑1 (MQ=255)
                                                                             |                                                                             
TTGTTCAAATTTCGTCACCGGACGTGATGCCGGACGCGGTACGTAATCATTGCTCTCTGACAGGTTTTTATAACCGTCAATAGAAGACATCACTTCAAGCATATGTTCCGCATAAGGTTCCCAGTCGGTCGCCATATGGAATACGCCCCCCAGCT  >  NC_000913/3102190‑3102344

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A