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
A21 F12 I1 R1	17	33.0	1187876	93.7%	1113039	142.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	4,604,632	C→A	A186E (GCA→GAA)	bglJ →	bgl operon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	4,604,632	0	C	A	97.4%	120.7 / ‑4.1	39	coding (557/678 nt)	bglJ	bgl operon transcriptional activator
Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (18/20); minor base . (1/0); total (19/20)
Fisher's exact test for biased strand distribution p-value = 4.87e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGACTGAACAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGCACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCATGATGCCGGGT  >  NC_000913_3_pae_tpiA/4604493‑4604770

cgacTGAACAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGAAGGATAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAAttt                                                                                                                                   >  1:322129/1‑150 (MQ=255)

  acTGAACAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGATCATAAATTTaa                                                                                                                                 <  1:375788/150‑1 (MQ=255)

    tGAACTATAAGTGGTACATTAACCAAAGGCGGACGTTAAGCCCGACGGAGAGTGAAATATTGCGCTTTATGTCGGGTGGCTACTGAATGACACAAATTGCCGAGCAGGTTAAACGCAGTATCAAAACGATCCGTGAACATAAATTTAAtg                                                                                                                               <  2:562858/150‑1 (MQ=255)

    tGAACAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAAGTTAAtg                                                                                                                               >  1:50180/1‑150 (MQ=255)

       aCAATCAGTTGTACATTAACCAAAGCCGGAGGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACAAAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGa                                                                                                                            <  2:531544/150‑1 (MQ=255)

       aCAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAAtgtgg                                                                                                                            >  1:120681/1‑149 (MQ=255)

       aCAAGCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCTCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGa                                                                                                                            <  2:529538/150‑1 (MQ=255)

               tGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTAGGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGaaa                                                                                                                   >  1:560617/1‑150 (MQ=255)

                     aTTAACCAAAGCGGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGAATGGCAATTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGc                                                                                                             <  2:365640/150‑1 (MQ=255)

                     aTTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGc                                                                                                             <  2:140506/150‑1 (MQ=255)

                         aCCAAAGCGGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGATACTGGGCGTCa                                                                                                         <  1:376842/150‑1 (MQ=255)

                          ccAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATCTCAACACGATCCGTGAACATAAAGTTGAGTTGATGT‑CGAAACTCGGCGTGAg                                                                                                        >  2:73060/1‑150 (MQ=255)

                                  ggACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CTAAACTGGGCGTACGTTCTGACg                                                                                                >  2:338867/1‑150 (MQ=255)

                                         aaGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCCCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGgtt                                                                                         <  2:424454/150‑1 (MQ=255)

                                                    agagagaAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATAT‑CGAAACTGGACGTCAGTTCTGACGCAGGGTTGTTGGAGGccc                                                                              >  2:526729/1‑149 (MQ=255)

                                                    agagagaAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCACAGCGGTTTTAGCGCAATATCAAAACGATCGGTG‑AGCTCAAGGGTATTTCAAGTGCTAAACTTGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCg                                                                              >  2:425620/1‑150 (MQ=255)

                                                      agagaAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGGGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCa                                                                            >  1:581317/1‑150 (MQ=255)

                                                        agaAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGgt                                                                                          >  2:2775/1‑134 (MQ=255)

                                                        agaAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGgt                                                                                          <  1:2775/134‑1 (MQ=255)

                                                                 gcgcTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAGTGTGATGT‑CGAAACTGGGCGTCAGTCCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGtt                                                                 <  1:345613/150‑1 (MQ=255)

                                                                             gcgTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCa                                                     <  2:323626/150‑1 (MQ=255)

                                                                                    tACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGaa                                              >  1:55455/1‑150 (MQ=255)

                                                                                     aCTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGaaa                                             <  1:425620/150‑1 (MQ=255)

                                                                                       tCAATGACACAAATTGCCGAGCAGCTTAAACGCAAAAGCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACa                                           >  2:484130/1‑150 (MQ=255)

                                                                                       tCAATGACACAAATTGCCGAGCAGCTTAAACACAATATCAAAACGATCCGTGAACAAAAATTTAATGTGATGT‑CCAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGGCATCCTGTTAAGTATGCAGAATTGCGAAACa                                           >  2:240039/1‑150 (MQ=255)

                                                                                       tCAATGACAAAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACa                                           <  2:230522/150‑1 (MQ=255)

                                                                                            gACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTaa                                      <  2:261062/150‑1 (MQ=255)

                                                                                               acaAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAAtgt                                   >  2:526126/1‑150 (MQ=255)

                                                                                               aacaaTTGCTGCGCAGGTTAAACGAAATATCAAAACGATCTGTGAACATAAATTTAATGTGACGT‑CGAACCTGGGCGTCAGTTCTGACGAAGGGTTGTTGGAGGCCGCAGATATTCTTTTATGTACGCGGCATTGCGAAACAAGTAAtgt                                   <  2:176857/147‑1 (MQ=255)

                                                                                                  aaTTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGtt                                >  2:331300/1‑150 (MQ=255)

                                                                                                  aaTTGCCCAGCAGCTTAAACGCAATATCAAAGCGTTCCGGGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGtt                                <  1:498919/150‑1 (MQ=255)

                                                                                                      gCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCAt                            <  1:425244/150‑1 (MQ=255)

                                                                                                           gcatcTTAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTa                       <  1:250902/150‑1 (MQ=255)

                                                                                                            catcTTAAACGCAATATTAAAACGATCCTTGAAGATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCGGACGCAGGGTTGGTGGATGCCGCAGATATTCGGTTATGTATGCGGCATTGCGAAACAAGTAATTTGGTGCTTCCCTAt                      <  2:373255/147‑1 (MQ=255)

                                                                                                                ttAAACGCAATATCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAAt                  >  1:110033/1‑150 (MQ=255)

                                                                                                                           atCAAAACGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCATGATGc       >  1:224286/1‑150 (MQ=255)

                                                                                                                              aacaCGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACACGTAATGTATTGCATACCTCTTAATCCGCATGATGCCgg    >  2:557082/4‑150 (MQ=255)

                                                                                                                               aaaCGATCCGTGAACATAAATTTAATGTGATGT‑CGAAACTGGGCATCAGTTCTGACGCAGGGTTGTTGTAGGGCGCAGATATTCTGTTATCTATGCCGCATTGCGAAACAAGTACTGTGTTGCATCCCTATTAATCCGCATGTTGCCggg   >  2:219952/1‑150 (MQ=255)

                                                                                                                                aaCGAGCGGTGAACATAAATTTAATGGGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCATGATGCCGGGt  <  2:89086/150‑1 (MQ=255)

CGACTGAACAATCAGTGGTACATTAACCAAAGCCGGACGTTAAGCCCGACGGAGAGAGAAATATTGCGCTTTATGTCGCGTGGCTACTCAATGACACAAATTGCCGAGCAGCTTAAACGCAATATCAAAACGATCCGTGCACATAAATTTAATGTGATGT‑CGAAACTGGGCGTCAGTTCTGACGCAGGGTTGTTGGAGGCCGCAGATATTCTGTTATGTATGCGGCATTGCGAAACAAGTAATGTGTTGCATCCCTATTAATCCGCATGATGCCGGGT  >  NC_000913_3_pae_tpiA/4604493‑4604770

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A