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
A5 F1 I1 R1 770 51.4 2439994 93.8% 2288714 110.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,050,691 G→A intergenic (‑24/+424) gcvT ← / ← ubiI aminomethyltransferase, tetrahydrofolate‑dependent, subunit (T protein) of glycine cleavage complex/2‑octaprenylphenol hydroxylase, FAD‑dependent

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,050,6910GA100.0% 170.8 / NA 55intergenic (‑24/+424)gcvT/ubiIaminomethyltransferase, tetrahydrofolate‑dependent, subunit (T protein) of glycine cleavage complex/2‑octaprenylphenol hydroxylase, FAD‑dependent
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (26/29);  total (26/29)

TGTTCGTCGATTTGCGAACCGTAATGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGGCTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTGTTAACCATAAGGTAAAATTGATC  >  NC_000913/3050558‑3050825
                                                                                                                                     |                                                                                                                                      
tgTTCGTCGATTTGCGAACCGTAATGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGAc                                                                                                                                   <  1:1000657/139‑1 (MQ=255)
 gTTCGTCGATTTGCGAACCGTAATGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACa                                                                                                                                  >  2:149823/1‑139 (MQ=255)
         aTTTGCGAACCGTAATGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTTTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTc                                                                                                                          <  1:1157904/139‑1 (MQ=255)
          tttGCGAACCGTAATGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCa                                                                                                                         <  2:925755/139‑1 (MQ=255)
          tttGCGAACCGTAATGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCa                                                                                                                         >  2:744332/1‑139 (MQ=255)
                   cGTAATGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAAt                                                                                                                >  2:231724/1‑139 (MQ=255)
                    gTAATGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAAtt                                                                                                               >  1:65617/1‑139 (MQ=255)
                        tGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATca                                                                                                           <  1:1160585/139‑1 (MQ=255)
                             cGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACg                                                                                                      <  2:1061200/139‑1 (MQ=255)
                                     gatggCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAg                                                                                              >  1:791528/5‑139 (MQ=255)
                                               gAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGcc                                                                                    >  2:519026/1‑139 (MQ=255)
                                                aaaTCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCa                                                                                   <  1:989894/139‑1 (MQ=255)
                                                 aaTCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCAc                                                                                  <  2:65617/139‑1 (MQ=255)
                                                 aaTCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCAc                                                                                  <  2:561256/139‑1 (MQ=255)
                                                          tGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTcc                                                                         >  1:486518/1‑139 (MQ=255)
                                                              aGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCaa                                                                     >  1:1075387/1‑139 (MQ=255)
                                                                            tgtgtTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTctct                                                       <  1:519026/139‑1 (MQ=255)
                                                                            tgtgtTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACT‑CCGGT‑CACAACGCAATCGTTCTCttt                                                     >  2:847265/1‑139 (MQ=255)
                                                                            tgtgtTGTTCGAACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTctct                                                       <  2:791528/139‑1 (MQ=255)
                                                                                 tgttCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGc                                                  <  2:701678/139‑1 (MQ=255)
                                                                                    tCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTctct                                                       >  2:957686/1‑131 (MQ=255)
                                                                                    tCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTctct                                                       <  1:957686/131‑1 (MQ=255)
                                                                                        aCAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACt                                           >  2:544384/1‑139 (MQ=255)
                                                                                            aGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACg                                                                   >  2:30070/1‑111 (MQ=255)
                                                                                            aGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACg                                                                   <  1:30070/111‑1 (MQ=255)
                                                                                             ggcgTCTGTTGTTCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCGTGGTGCAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCACCGCAATCGTTCTCTTTTTCCTGAACTTaaca                                      >  1:877663/4‑139 (MQ=255)
                                                                                               aGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTaccacc                                    <  2:486518/139‑1 (MQ=255)
                                                                                                 tCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGt                                                                                                                     >  1:487045/1‑56 (MQ=255)
                                                                                                 tCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGt                                                                                                                     <  2:487045/56‑1 (MQ=255)
                                                                                                       gtgCCATCTTGTCCTCAATGAATAAGCGAGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACGGa                            <  1:807199/139‑1 (MQ=255)
                                                                                                        tgCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCGTCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGa                            >  2:630473/1‑138 (MQ=255)
                                                                                                        tgCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCGTCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGa                            <  1:630473/138‑1 (MQ=255)
                                                                                                        tgCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTccc                                                                        <  1:951048/94‑1 (MQ=255)
                                                                                                        tgCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTccc                                                                        >  2:951048/1‑94 (MQ=255)
                                                                                                        tgCCATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGAc                           <  1:592376/139‑1 (MQ=255)
                                                                                                          ccATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTg                         >  2:325395/1‑139 (MQ=255)
                                                                                                           cATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACa                              <  2:148862/133‑1 (MQ=255)
                                                                                                           cATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACa                              >  1:148862/1‑133 (MQ=255)
                                                                                                           cATCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTGt                        >  1:1140476/1‑139 (MQ=255)
                                                                                                            aTCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTGtt                       <  1:325395/139‑1 (MQ=255)
                                                                                                            aTCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTGtt                       <  1:149823/139‑1 (MQ=255)
                                                                                                             tCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCAt                                                                                           >  2:456098/1‑70 (MQ=255)
                                                                                                             tCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCAt                                                                                           <  1:456098/70‑1 (MQ=255)
                                                                                                             tCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCa                                                                                   <  2:186097/78‑1 (MQ=255)
                                                                                                             tCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCa                                                                                   >  1:186097/1‑78 (MQ=255)
                                                                                                             tCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCt                                                <  2:480361/113‑1 (MQ=255)
                                                                                                             tCTTGTCCTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCt                                                >  1:480361/1‑113 (MQ=255)
                                                                                                                    cTCATTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTGTTAACCATaa               >  1:79100/1‑139 (MQ=255)
                                                                                                                       aTTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTcc                                                                               >  1:533152/1‑72 (MQ=255)
                                                                                                                       aTTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTcc                                                                               <  2:533152/72‑1 (MQ=255)
                                                                                                                       aTTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGa                            <  2:678537/123‑1 (MQ=255)
                                                                                                                       aTTGAATAAGCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGa                            >  1:678537/1‑123 (MQ=255)
                                                                                                                                gCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTGTTAACCATAAGGTAAAATTGat   <  2:877663/139‑1 (MQ=255)
                                                                                                                                gCGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTGTTAACCATAAGGTAAAATTGat   >  1:436873/1‑139 (MQ=255)
                                                                                                                                 cGGGACTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTGTTAACCATAAGGTAAAATTGatc  <  2:79100/139‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                      
TGTTCGTCGATTTGCGAACCGTAATGCAGCGGCATCATCCAGCCGTGGAAATCCACCATGCGAGCGCCGCAAAGCGTGTGTTGTTCGTACAAAGGAGTCTGTTGTGCCATCTTGTCCTCATTGAATAAGCGGGGCTGACAACTTTTTCATGGTGAAATTATCACCACGAAACCCAGCATCGGAGCCACTCCCGGTCCCCAACGCAATCGTTCTCTTTTGCCTGAACTTACCACCGAAACAGACTGTTAACCATAAGGTAAAATTGATC  >  NC_000913/3050558‑3050825

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A