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
A2 F1 I1 R1	13	33.8	2116282	98.9%	2093002	80.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,471,736	A→T	F593L (TTT→TTA)	fusA ←	elongation factor G

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,471,736	0	A	T	100.0%	168.9 / NA	44	F593L (TTT→TTA)	fusA	elongation factor G
Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (28/16); total (28/16)

AACCTTCATGATCGGCTCAAGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTAAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTCTACTACCGGGTAGCC  >  NC_000913/3471658‑3471813

aaCCTTCATGATCGGCTCAAGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTtaa                                                                             <  2:699031/81‑1 (MQ=255)

  ccTTCATGATCGGCTCAAGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACg                                                                           <  2:699032/81‑1 (MQ=255)

         gATCGGCTCAAGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGtt                                                                     >  1:699089/1‑80 (MQ=255)

         gATCGGCTCAAGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGtt                                                                     >  2:699104/1‑80 (MQ=255)

         gATCGGCTCAAGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTT‑AAGGCGATAGAAGCAGCCAGTTTTAACGCCAGtt                                                                     >  1:699074/1‑79 (MQ=255)

          aTCGGCTCAAGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGtt                                                                     >  1:699084/1‑79 (MQ=255)

             ggCTCAAGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCagag                                                                >  1:699087/1‑81 (MQ=255)

               cTCAAGCAGAACTGGTTTCGCTTTCCTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCagag                                                                >  2:699086/1‑79 (MQ=255)

                  aaGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTc                                                           <  2:699033/81‑1 (MQ=255)

                   aGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTc                                                           >  1:699083/1‑80 (MQ=255)

                   aGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTc                                                           >  2:699113/1‑80 (MQ=255)

                     cAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAAc                                                        >  2:699102/1‑81 (MQ=255)

                     cAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAAc                                                        <  1:699034/81‑1 (MQ=255)

                      aGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACg                                                       >  2:699094/1‑81 (MQ=255)

                        aaCTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTc                                                     <  2:699035/81‑1 (MQ=255)

                          cTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCAt                                                   <  1:699036/81‑1 (MQ=255)

                          cTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCAt                                                   >  2:699106/1‑81 (MQ=255)

                           tGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATg                                                  >  1:699079/1‑81 (MQ=255)

                           tGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATg                                                  >  1:699091/1‑81 (MQ=255)

                               ttCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACATCATGGt                                                >  1:699108/1‑79 (MQ=255)

                                 cGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAg                                             >  1:699107/1‑80 (MQ=255)

                                 cGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAg                                             <  2:699037/80‑1 (MQ=255)

                                    tttCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAAcc                                         >  1:699109/1‑81 (MQ=255)

                                      tCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCg                                        <  1:699038/80‑1 (MQ=255)

                                      tCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCg                                        >  1:699105/1‑80 (MQ=255)

                                       cTTAAAGCCTTTTTTAAAGGCGATAGGAGCCGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGa                                       <  1:699039/80‑1 (MQ=255)

                                       cTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCAAGTTCAGAGGAGTCAACGTCATGGTAAGAACCg                                        >  2:699118/1‑79 (MQ=255)

                                        ttAAACCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAg                                     >  2:699100/1‑81 (MQ=255)

                                           aaGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTg                                   >  2:699095/1‑80 (MQ=255)

                                             gCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTg                                   >  2:699080/1‑78 (MQ=255)

                                             gCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAg                                <  2:699040/81‑1 (MQ=255)

                                                  cttTAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGa                            <  1:699041/80‑1 (MQ=255)

                                                    ttAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATa                         >  1:699130/1‑81 (MQ=255)

                                                     tAAAGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATAc                        >  1:699103/1‑81 (MQ=255)

                                                      aaaGGCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATAc                        <  2:699042/80‑1 (MQ=255)

                                                         ggCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCAt                    >  1:699096/1‑81 (MQ=255)

                                                          gCGATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATg                   >  2:699093/1‑81 (MQ=255)

                                                            gATAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTc                 >  2:699115/1‑81 (MQ=255)

                                                             aTAGAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTct                <  2:699043/81‑1 (MQ=255)

                                                                gAAGCAGCCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTctact             <  2:699044/81‑1 (MQ=255)

                                                                   gcagcCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTCTACTAcc          <  1:699045/81‑1 (MQ=255)

                                                                     agcCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTCTACTACCgg        >  2:699120/1‑81 (MQ=255)

                                                                     agcCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTCTACTACCgg        >  2:699114/1‑81 (MQ=255)

                                                                     agcCAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTCTACTACCgg        <  2:699046/81‑1 (MQ=255)

                                                                       ccAGTTTTAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTCTACTACCGGGt      <  1:699047/81‑1 (MQ=255)

                                                                           ttttAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTCTACTACCGGGTAGcc  <  2:699048/81‑1 (MQ=255)

AACCTTCATGATCGGCTCAAGCAGAACTGGTTTCGCTTTCTTAAAGCCTTCTTTAAAGGCGATAGAAGCAGCCAGTTTAAACGCCAGTTCAGAGGAGTCAACGTCATGGTAAGAACCGAAGTGCAGACGAATACCCATGTCTACTACCGGGTAGCC  >  NC_000913/3471658‑3471813

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A