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
A24 F106 I2 R1	20	33.2	1150230	93.5%	1075465	143.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	4,177,806	G→T	V50F (GTT→TTT)	nusG →	transcription termination factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	4,177,806	0	G	T	97.4%	118.3 / NA	39	V50F (GTT→TTT)	nusG	transcription termination factor
Reads supporting (aligned to +/- strand): ref base G (1/0); new base T (23/15); total (24/15)
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

TGTCTGAAGCTCCTAAAAAGCGCTGGTACGTCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGGTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTCATCGGCGGTACTTCCGA  >  NC_000913_3_pae_tpiA/4177660‑4177951

tGTCTGCAGCTCCTAAACAGCGCTTGTACGGCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGttt                                                                                                                                                 <  2:233004/149‑1 (MQ=255)

tGTCTGAAGCTCCTAAAAAGCGCTGGTACGTCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGttt                                                                                                                                                 <  2:202381/149‑1 (MQ=255)

 gTCTGAAGCTCCTAAAAAGCGCTGGTACGTCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTg                                                                                                                                                <  2:359030/149‑1 (MQ=255)

    tGAAGCTCCTAAAAAGCGCTGGTACGTCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTTAATTCATGTTACCAACCGAAGAAGTGTTTGaaa                                                                                                                                             <  2:123959/149‑1 (MQ=255)

        gCTCCTAAAAAGCGCTGGTACGTCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGGGTTTGAAATCCg                                                                                                                                         >  1:530791/1‑149 (MQ=255)

           ccTAAAAAGCGCTGGTACGTCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGAATATCAAATTACACAACATGGAAGATTTGTTTGGTGAGGTCATGGTACCAACGTAGGAAGTGTTTGAAATccatag                                                                                                                                      >  1:270976/1‑145 (MQ=255)

              aaaaaGCGCTGGTACGTCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCgg                                                                                                                                   >  2:421333/1‑149 (MQ=255)

                     gcTGGTACGTCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGt                                                                                                                            >  1:108981/1‑149 (MQ=255)

                      cTGGTACGTCGGTCACGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGGGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTc                                                                                                                           <  1:8736/149‑1 (MQ=255)

                             gtcgtTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATAACAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAg                                                                                                                    <  1:421333/149‑1 (MQ=255)

                                    aGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAAt                                                                                                                                            >  1:475965/1‑118 (MQ=255)

                                    aGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAAt                                                                                                                                            <  2:475965/118‑1 (MQ=255)

                                         ttttACGATTTTGGAGGCCGGGAAGCGACGTCACTGCGGGAGCAGGGCAAGTTACACAACATGGAAGAATTGGTTGGGGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAAtt                                                                                                        >  2:340212/1‑149 (MQ=255)

                                            tCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAAttctt                                                                                                     >  2:292224/1‑149 (MQ=255)

                                               ggTTGTGAAGGCCGCGGAGGAACGTCGCGGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTccc                                                                                                  <  2:366139/149‑1 (MQ=255)

                                                gTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAAGATGGCAGATTTGTTTGGTGAAGTCGTGGTACAAAGCGAAGAAGCGTTTGAAAACAGTGGCGTTCAGCGTCGCAAGAACGAACGTACATTCATCCCt                                                                                                 >  2:186604/1‑149 (MQ=255)

                                                            gggTAGCAACGTCGCTGCGTGACCATCTTAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGGGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTc                                                                                     <  2:112322/147‑1 (MQ=255)

                                                            gcgTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTc                                                                                     >  1:316407/1‑149 (MQ=255)

                                                                   aaCGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTCGCTACGTCCTCGTTCCGa                                                                              >  2:415438/1‑149 (MQ=255)

                                                                      gTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGGTgg                                                                           <  2:108981/149‑1 (MQ=255)

                                                                       tCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATggg                                                                          >  2:142713/1‑148 (MQ=255)

                                                                           tGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGtgatg                                                                      >  1:384245/1‑149 (MQ=255)

                                                                                       tCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGc                                                          <  1:572481/149‑1 (MQ=255)

                                                                                        cAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCt                                                         <  1:331891/149‑1 (MQ=255)

                                                                                                  aacaTGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGt                                               <  2:335470/149‑1 (MQ=255)

                                                                                                  aacaTGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGt                                               >  1:95173/1‑149 (MQ=255)

                                                                                                       ggAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCa                                          >  1:300538/1‑149 (MQ=255)

                                                                                                       ggAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTCGTgcgcc                                          >  2:397418/1‑148 (MQ=255)

                                                                                                                 tttgGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACcgcg                                >  2:430235/1‑149 (MQ=255)

                                                                                                                 tttgGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACcgcg                                <  1:468234/149‑1 (MQ=255)

                                                                                                                   tgGTGAAGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCgtg                              <  1:427998/149‑1 (MQ=255)

                                                                                                                         aGTCATGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATgg                        >  1:55855/1‑149 (MQ=255)

                                                                                                                              tGGTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTc                   <  1:492871/149‑1 (MQ=255)

                                                                                                                                gTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTCAt                 >  1:39366/1‑149 (MQ=255)

                                                                                                                                gTACCAACCGAAGAAGTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTCAt                 >  1:327865/1‑149 (MQ=255)

                                                                                                                                     aaCCGAAGAAGTGGTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGGGATGGGCTTCATcggcc            >  1:472251/1‑148 (MQ=255)

                                                                                                                                         gaagacGTGTTTAAAATCCGTGGCGGTCAGGATCGCAAAAGCGTACGTAAATTCTTTCCTGGCTCCGTCCTCGTTCCGACGGTGAAGAACGACGTGGGCTGGCCTCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTCATCGGCGGTAc        <  2:417201/149‑1 (MQ=255)

                                                                                                                                          aagaagTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTCATCGGCGGTACt       >  1:450914/1‑149 (MQ=255)

                                                                                                                                             aagTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAATGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTCATCGGCAGTACTTcc    >  1:509207/1‑149 (MQ=255)

                                                                                                                                             aagTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTCATCGGCGGTACTTcc    >  2:76822/1‑149 (MQ=255)

                                                                                                                                             aagTGTTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGAGCAGCGTACCGCGTGTGATGGGCTTCATCGGCGGTCCTTcc    >  2:362432/1‑149 (MQ=255)

                                                                                                                                               gtgtTTGAAATCCGCGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCGTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTCATCGGCGGTACTTCCGa  <  2:450198/149‑1 (MQ=255)

TGTCTGAAGCTCCTAAAAAGCGCTGGTACGTCGTTCAGGCGTTTTCCGGTTTTGAAGGCCGCGTAGCAACGTCGCTGCGTGAGCATATCAAATTACACAACATGGAAGATTTGTTTGGTGAAGTCATGGTACCAACCGAAGAAGTGGTTGAAATCCGTGGCGGTCAGCGTCGCAAAAGCGAACGTAAATTCTTCCCTGGCTACGTCCTCGTTCAGATGGTGATGAACGACGCGAGCTGGCACCTGGTGCGCAGCGTACCGCGTGTGATGGGCTTCATCGGCGGTACTTCCGA  >  NC_000913_3_pae_tpiA/4177660‑4177951

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