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 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	2,802,488	G→A	62.1%	G206G (GGC→GGT)	qor ←	quinone oxidoreductase, NADPH‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,802,488	0	G	A	62.1%	57.5 / 71.4	108	G206G (GGC→GGT)	qor	quinone oxidoreductase, NADPH‑dependent
Reads supporting (aligned to +/- strand): ref base G (10/31); new base A (28/39); total (38/70)
Fisher's exact test for biased strand distribution p-value = 9.62e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.53e-01

Only 100 of 108 total aligned reads displayed.

AATCCAGCGACCGTTCCCAGGTGTCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGC  >  minE/2802424‑2802545

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCTCACTTTCTTACCACCgg                                                       <  1:2385649/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTAGCACCgg                                                       <  1:4895/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:464929/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:1765695/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:20069/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:2674635/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:1543658/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:3024892/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:322612/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:3287052/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:1266074/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:1248090/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:550139/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:1129033/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:825810/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:982936/69‑1 (MQ=255)

aaTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:1036481/69‑1 (MQ=255)

 aTCCAGCGACCGTTCCCAGGTGTCTCTGCCCACTGAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:671099/68‑1 (MQ=255)

  tCCAGCGACCGTTCCCAGGTGTCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTg                                                     <  1:546556/69‑1 (MQ=255)

  tCCAGCGACCGTTCCCAGGTGTCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTg                                                     <  1:3209701/69‑1 (MQ=255)

  tCCAGCGACCGTTCCCAGGTGTCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTg                                                     <  1:2781759/69‑1 (MQ=255)

  tCCAGCGACCGTTCCCAGGTGTCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTg                                                     <  1:681434/69‑1 (MQ=255)

  tCCAGCGACCGTTCCCAGGTGTCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTg                                                     <  1:1597990/69‑1 (MQ=255)

               cccAGGTGTCTCTGCCCACGGAATCGTACACCACTCGCACTTTCTTACCGCCGGTGATCTCTTTTAAcc                                        >  1:3105414/1‑69 (MQ=255)

               cccAGGTGTCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAAcc                                        >  1:2201067/1‑69 (MQ=255)

               cccAGGTGTCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAAcc                                        >  1:991550/1‑69 (MQ=255)

                      gtCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCg                                   >  1:2601474/1‑67 (MQ=255)

                      gtCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCg                                   >  1:1557854/1‑67 (MQ=255)

                      gtCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCg                                   >  1:1412929/1‑67 (MQ=255)

                      gtCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGAc                                 <  1:1126996/69‑1 (MQ=255)

                                  tgAATCGTACACCACGCGCACTTTCTTACCACCgg                                                       <  1:469747/34‑1 (MQ=38)

                                   gAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTc                     >  1:239258/1‑68 (MQ=255)

                                    aaTCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCAc                   <  1:95378/69‑1 (MQ=255)

                                    aaTCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCAc                   <  1:53877/69‑1 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATctct                                               >  1:2996588/1‑39 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:2634201/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:3099105/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1544988/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1539632/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:2878201/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:2921734/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1748664/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:3118110/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:3127749/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1388461/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:4496/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:635196/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:785114/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:966853/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:982299/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1025979/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:172466/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1873051/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1975728/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:2428058/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1597437/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1678277/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:2298844/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:2019400/1‑41 (MQ=255)

                                      tCGTACACCACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:206065/1‑41 (MQ=255)

                                      tCGTACAACACGCGCACTTTCTTACCACCGGTGATCTCttt                                             >  1:1022294/1‑41 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:2134006/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:266072/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:3273131/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:3311516/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:507600/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:544499/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:1237580/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:1190405/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:872571/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:1756027/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:2795372/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:2875734/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:2369571/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:1457770/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:3221047/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTCGCGATAg              <  1:2756709/68‑1 (MQ=255)

                                          acacCACGCGCACTTTCTTACCACCGGTGATCTCTTTCAATCGCTCGACCAGGTTTTCTTAGCGATAg              <  1:3109690/68‑1 (MQ=255)

                                           caccacGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCCCGATAGtt            >  1:2560518/1‑69 (MQ=255)

                                           caccacGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGtt            <  1:99000/69‑1 (MQ=255)

                                           caccacGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGtt            <  1:2239731/69‑1 (MQ=255)

                                           caccacGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGtt            <  1:2456125/69‑1 (MQ=255)

                                              cacGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTtaat         <  1:1526302/69‑1 (MQ=255)

                                              cacGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTtaat         <  1:1085871/69‑1 (MQ=255)

                                              cacGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTtaat         <  1:1302123/69‑1 (MQ=255)

                                               acGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTtaat         <  1:2060906/68‑1 (MQ=255)

                                                     aCTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGc  <  1:1778343/69‑1 (MQ=255)

                                                     aCTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGc  <  1:1349802/69‑1 (MQ=255)

                                                     aCTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGc  <  1:1927403/69‑1 (MQ=255)

                                                     aCTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGc  <  1:936234/69‑1 (MQ=255)

                                                     aCTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGc  <  1:416746/69‑1 (MQ=255)

                                                     aCTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGc  <  1:888651/69‑1 (MQ=255)

                                                         tCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATcc                          <  1:627414/41‑1 (MQ=255)

                                                         tCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATcc                          <  1:1098753/41‑1 (MQ=255)

                                                         tCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATcc                          <  1:2417152/41‑1 (MQ=255)

                                                         tCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATcc                          <  1:3003290/41‑1 (MQ=255)

                                                         tCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATcc                          <  1:1248189/41‑1 (MQ=255)

                                                         tCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATcc                          <  1:2310221/41‑1 (MQ=255)

                                                         tCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATcc                          <  1:136483/41‑1 (MQ=255)

                                                         tCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATcc                          <  1:3211672/41‑1 (MQ=255)

AATCCAGCGACCGTTCCCAGGTGTCTCTGCCCACGGAATCGTACACCACGCGCACTTTCTTACCGCCGGTGATCTCTTTTAACCGCTCGACCAGATCCTCTTCACGATAGTTAATAACCTGC  >  minE/2802424‑2802545

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A