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
A3 F34 I1 R1	25	28.2	1258260	90.1%	1133692	142.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,026,927	A→T	V30E (GTG→GAG)	mgsA ←	methylglyoxal synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,026,927	0	A	T	96.3%	74.1 / NA	28	V30E (GTG→GAG)	mgsA	methylglyoxal synthase
Reads supporting (aligned to +/- strand): ref base A (0/0); major base T (11/15); minor base G (0/1); total (11/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATGCGCCAACCTGCTGGTCACCCCCCATTGGGCCACTCAACATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCACCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGTTCCATAATGTACATCCGTAGTTAACTTTCCTACAGATTACTGTAAGCACTTA  >  NC_000913/1026787‑1027062

aTGCGCCAACCTCCTGGGCACCCCCCATTGCGCCACTCAACATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTtcctcc                                                                                                                                       <  1:448015/143‑1 (MQ=255)

      gagccTGCGGGCCACCCCCCTTTGGGGCACTCTGCATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTACCGCTTGATGCCGTTCCTCCCAGCtc                                                                                                                                 <  2:9223/140‑1 (MQ=255)

            gctgGTCACCCCCCATTGGGCCACTCAACATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCCGc                                                                                                                           >  1:527515/1‑143 (MQ=255)

                  cACCCCCCAGTGGGCCACTCAACATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTTTGCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCAtttgt                                                                                                                     <  1:76986/143‑1 (MQ=255)

                     ccccccTTGGGCCCCTCAACATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCAtttgtttg                                                                                                                  <  2:400713/143‑1 (MQ=255)

                      ccccATTGGGCCACTCAACATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGGCGTTCCTCCCCGCTCATCAGCATTTGTTTGc                                                                                                                 >  1:70277/1‑143 (MQ=255)

                       cccATTGGGCCACTCAACATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCa                                                                                                                <  2:292268/143‑1 (MQ=255)

                             gggCCGCTCAACATCGCGTGGACGTTCAGGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATc                                                                                                          <  1:127779/143‑1 (MQ=255)

                                 cACTCACCATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCgtgt                                                                                                      <  1:480372/143‑1 (MQ=255)

                                  aCTCACCAGCGCGTTGACCTGCATGCCGGTCGCGCGGGAAAGTAATTTACCGGTAGTGCCTGTTGCATACTGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGtgtg                                                                                                     <  2:6851/143‑1 (MQ=255)

                                        cATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGccacca                                                                                               >  2:474564/1‑143 (MQ=255)

                                          tCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAgc                                                                                             >  2:527576/1‑143 (MQ=255)

                                                     ttCATGCCGGGCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGttt                                                                                  <  1:415758/143‑1 (MQ=255)

                                                         tGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCcgc                                                                              >  2:152647/1‑143 (MQ=255)

                                                            cGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCa                                                                           <  1:452710/143‑1 (MQ=255)

                                                                        aaaTTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTACCGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGa                                                               <  2:214525/143‑1 (MQ=255)

                                                                                  aCCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGtt                                                     <  1:373128/143‑1 (MQ=255)

                                                                                    cGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCCCGCAGGTAACGTGCGAGTCGTCAGTTcc                                                   >  2:586363/1‑143 (MQ=255)

                                                                                          tGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGTTCCATAATg                                             <  1:480103/143‑1 (MQ=255)

                                                                                          tGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATATGTTTGCAGTGATCGTGTGCCACCAGAGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGTTCCATaacg                                             >  2:208717/1‑141 (MQ=255)

                                                                                           gCCGGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGTTCCATAATGt                                            <  1:610646/143‑1 (MQ=255)

                                                                                             cTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCGGGTAAAGTGCGAGTCGTCAGTTCCATAATGtcc                                          >  1:266357/1‑141 (MQ=255)

                                                                                                  gCATACAGTCCGTGTTGTCCCAGGAACGGTTGATGCCGTCCCTCCCAGCTCATCAGCATGTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGTTCCATAATGTACATCCg                                     <  1:576808/143‑1 (MQ=255)

                                                                                                     tACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGTTCCATAATGTACATCCGTAg                                  >  1:223745/1‑143 (MQ=255)

                                                                                                                    tCCAGTAACGGTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGGCACTTCCATAATGTACACCCGTAGTTAACTTCCCTCCaa                   >  2:81740/1‑142 (MQ=255)

                                                                                                                     ccAGCAACGGTTGCTGCCGTTCCGCCCAGCCCTTCAGCCTTTGTTTGCAGTGACCGCGTGCCACCGCCGCCATATTTTGCCGCGCAGGTAAAGTGCGAGTCGGCAGTTCCATAATGTACATCCGTAGTTAACTTTCCTACAGa                  <  1:203022/143‑1 (MQ=255)

                                                                                                                              gTTGATGCCGTTCCTCCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGTTCCATAATGTACATCCGTAGTTAACTTTCCTACAGATTACTGTaa         >  1:389860/1‑143 (MQ=255)

                                                                                                                                tGATGCCGTTCCTCCCAGCTCATCAGCATGTGTTTGCAGTGATCGTGTTCCACCAGCGCAATATGTTTCCGCTCATGTAAAGTGCGAGTCGTCAGTTCCATAATGTACATCCGTAGTTAACTTTCCTACAGATTACTGTAAGc       <  2:73564/143‑1 (MQ=255)

                                                                                                                                     ccGTCCCCCCAAGCCCACCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGTTCCATAATGTACATCCGTAGTTCACTTTCCTACAGATTACTGTAAGCACTTa  <  1:440854/143‑1 (MQ=255)

ATGCGCCAACCTGCTGGTCACCCCCCATTGGGCCACTCAACATCGCGTTGACGTTCATGCCGGTCGCGCGGGAAATTAAGTTACCGGTAGTGCCTGTTGCATACAGTACGTGTTGTTCCAGTAACGGTTGATGCCGTTCCACCCAGCTCATCAGCATTTGTTTGCAGTGATCGTGTGCCACCAGCGCAATATGTTTCCGCGCAGGTAAAGTGCGAGTCGTCAGTTCCATAATGTACATCCGTAGTTAACTTTCCTACAGATTACTGTAAGCACTTA  >  NC_000913/1026787‑1027062

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A