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
A4 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,545,565	G→A	228 (TAG→TAA)	gntX →	DNA catabolic protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,545,565	0	G	A	100.0%	151.5 / NA	47	228 (TAG→TAA)	gntX	DNA catabolic protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (20/27); total (20/27)

GCAAGGTCGCCATATGGTGATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAGAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAACTGCTGGCAAATCAGGAAGAAGGGACACAAATCCG  >  NC_000913/3545436‑3545700

gCAAGGTCGCCATATGGTGATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCgat                                                                                                                                >  2:603565/1‑139 (MQ=255)

      tCGCCATATGGTGATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCTATGATggg                                                                                                                          <  1:603565/139‑1 (MQ=255)

      tCGCCATATGGTGATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATggg                                                                                                                          <  1:724471/139‑1 (MQ=255)

      tCGCCATATGGTGATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATggg                                                                                                                          <  2:397972/139‑1 (MQ=255)

       cGCCATATGGTGATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGATATTGTGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAGGCCTCGATGATGGGc                                                                                                                         <  2:803088/139‑1 (MQ=255)

                gTGATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGc                                                                                                                         <  1:277216/130‑1 (MQ=255)

                gTGATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGc                                                                                                                         >  2:277216/1‑130 (MQ=255)

                  gATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAAcc                                                                                                              >  1:26144/1‑139 (MQ=255)

                  gATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAAcc                                                                                                              <  2:528624/139‑1 (MQ=255)

                      gtgGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATaa                                                                                                                >  1:293193/1‑133 (MQ=255)

                      gtgGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATaa                                                                                                                <  2:293193/133‑1 (MQ=255)

                       tgGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTa                                                                                                         >  1:846568/1‑139 (MQ=255)

                               gTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTc                                                                                                 >  2:571446/1‑139 (MQ=255)

                                     accaccGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTAt                                                                                           <  1:369688/139‑1 (MQ=255)

                                       caccGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTa                                                                                         <  2:846568/139‑1 (MQ=255)

                                        accGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTc                                                                                                 >  2:56395/1‑130 (MQ=255)

                                        accGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTc                                                                                                 <  1:56395/130‑1 (MQ=255)

                                          cGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGc                                                                                      <  2:212934/139‑1 (MQ=255)

                                            gAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCa                                                                                    <  1:7752/139‑1 (MQ=255)

                                            gAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCa                                                                                    <  1:922642/139‑1 (MQ=255)

                                                 aCCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGc                                                                                      >  1:634753/1‑132 (MQ=255)

                                                 aCCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTCGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGc                                                                                      <  2:634753/132‑1 (MQ=255)

                                                    gTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTaaag                                                                                                                                       >  2:383991/1‑80 (MQ=255)

                                                     tCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAAcc                                                                                                              >  2:499019/1‑104 (MQ=255)

                                                     tCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAAcc                                                                                                              <  1:499019/104‑1 (MQ=255)

                                                       gCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAAcc                                                                                                              >  1:405213/1‑102 (MQ=255)

                                                       gCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAAcc                                                                                                              <  2:405213/102‑1 (MQ=255)

                                                                  gcAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGa                                                              <  2:909047/139‑1 (MQ=255)

                                                                      ttGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCgatga                                                                                                                              >  1:748686/1‑71 (MQ=255)

                                                                      ttGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCgatga                                                                                                                              <  2:748686/71‑1 (MQ=255)

                                                                      ttGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATg                                                                            <  1:332472/121‑1 (MQ=255)

                                                                      ttGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATg                                                                            >  2:332472/1‑121 (MQ=255)

                                                                                gCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTAt                                                                                           <  1:812582/96‑1 (MQ=255)

                                                                                gCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTAt                                                                                           >  2:812582/1‑96 (MQ=255)

                                                                                    tGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAAcc                                                                                                              <  2:492015/73‑1 (MQ=255)

                                                                                    tGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAAcc                                                                                                              >  1:492015/1‑73 (MQ=255)

                                                                                         cggcggCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGc                                                                                                                         >  1:97514/1‑57 (MQ=255)

                                                                                         cggcggCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGc                                                                                                                         <  2:97514/57‑1 (MQ=255)

                                                                                                       gTCTGGTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAACTGCTGGCAAAt                         >  1:261957/1‑139 (MQ=255)

                                                                                                            gTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCa                                                                                    <  2:356294/75‑1 (MQ=255)

                                                                                                            gTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCa                                                                                    >  1:356294/1‑75 (MQ=255)

                                                                                                            gTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAACTGCTGGCaa                           <  2:28500/132‑1 (MQ=255)

                                                                                                            gTGCCTTTGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAACTGCTGGCaa                           >  1:28500/1‑132 (MQ=255)

                                                                                                                   tGTCGAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAACTGCTGGCAAATCAGGAAGAAggg             >  1:51429/1‑139 (MQ=255)

                                                                                                                       gAACCTTGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAACTGCTGGCAAATCAGGAAGAAGGGacac         <  2:51429/139‑1 (MQ=255)

                                                                                                                             tGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAAc                                    <  1:212767/106‑1 (MQ=255)

                                                                                                                             tGTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAAc                                    >  2:212767/1‑106 (MQ=255)

                                                                                                                              gTAAAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAACTGCTGGCAAATCAGGAAGAAGGGACACAAATCcg  <  2:26144/139‑1 (MQ=255)

GCAAGGTCGCCATATGGTGATTGTGGATGATGTCGTTACCACCGGAAGTACCGTCGCAGAGATTGCGCAGTTGCTTTTACGCAATGGTGCGGCGGCTGTCCAGGTCTGGTGCCTTTGTCGAACCTTGTAGAGCCTCGATGATGGGCGTATTATAACCAACTAAAATAGTCAACTATTAGGCCATTACTATGATCCGTATTTCCGATGCTGCACAAGCGCACTTTGCCAAACTGCTGGCAAATCAGGAAGAAGGGACACAAATCCG  >  NC_000913/3545436‑3545700

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A