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
A12 F1 I1 R1	760	58.2	3022526	90.8%	2744453	102.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,835,045	G→A	378 (TAG→TAA)	norW →	NADH:flavorubredoxin oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,835,045	0	G	A	98.2%	171.6 / NA	54	378 (TAG→TAA)	norW	NADH:flavorubredoxin oxidoreductase
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (30/23); minor base C (1/0); total (31/23)
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

GGCAAATTAATACCGAACGCCAGGGAATGGTGGCGCGCGGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTAT  >  NC_000913/2834915‑2835176

ggCAAATTAATACCGAACGCCAGGGAATGGTGGCGCGCGGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGTAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTa                                                                                                                             >  2:798897/1‑139 (MQ=255)

ggCAAATTAATACCGAACGCCAGGGAATGGTGGCGCGCGGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTa                                                                                                                             >  2:1105555/1‑139 (MQ=255)

        aaTACCGAACGCCAGGGAATGGTGGCGCGCGGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCt                                                                                                                     <  1:798897/139‑1 (MQ=255)

           aCCGAACGCCAGGGAATGGTGGCGCGCGGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTaaa                                                                                                                  >  1:53140/1‑139 (MQ=255)

               aaCGCCAGGGAATGGTGGCGCGCGGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGt                                                                                                              <  1:225225/139‑1 (MQ=255)

                aCGCCAGGGAATGGTGGCGCGCGGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTc                                                                                                             >  2:400148/1‑139 (MQ=255)

                               ggCGCGCGGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGgc                                                                                              <  2:53140/139‑1 (MQ=255)

                                   cgcgGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGt                                                                                          >  2:1139712/1‑139 (MQ=255)

                                   cgcgGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGt                                                                                          <  1:1105555/139‑1 (MQ=255)

                                                    tGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACggg                                                                         <  2:281984/139‑1 (MQ=255)

                                                      aCCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGa                                                                       <  1:1139712/139‑1 (MQ=255)

                                                      aCCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGa                                                                       >  2:81187/1‑139 (MQ=255)

                                                           cTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCAt                                                                  >  2:504783/1‑139 (MQ=255)

                                                                      tgtgGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCgg                                                       >  2:949789/1‑139 (MQ=255)

                                                                              gTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACggg                                                                         <  2:844287/113‑1 (MQ=255)

                                                                              gTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACggg                                                                         >  1:844287/1‑113 (MQ=255)

                                                                               tGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACtgt                                                                                                                         >  2:376022/1‑64 (MQ=255)

                                                                               tGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACtgt                                                                                                                         <  1:376022/64‑1 (MQ=255)

                                                                               tGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATc                                                                                    <  1:654302/101‑1 (MQ=255)

                                                                               tGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATc                                                                                    >  2:654302/1‑101 (MQ=255)

                                                                               tGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACg                                                                     >  1:43360/1‑116 (MQ=255)

                                                                               tGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACg                                                                     <  2:43360/116‑1 (MQ=255)

                                                                                    aTCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTAcg                                         >  2:1430248/1‑139 (MQ=255)

                                                                                       ggATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACt                                                                                                                           >  2:156689/1‑54 (MQ=255)

                                                                                       ggATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACt                                                                                                                           <  1:156689/54‑1 (MQ=255)

                                                                                         aTGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCa                                    <  1:81187/139‑1 (MQ=255)

                                                                                         aTGAAAAAGGCATTTGGATTGTTGAAAACATTGCCGATGTACGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCa                                    >  2:402824/1‑139 (MQ=255)

                                                                                             aaGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGa                                                                                 >  1:827089/1‑90 (MQ=255)

                                                                                             aaGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGa                                                                                 <  2:827089/90‑1 (MQ=255)

                                                                                             aaGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACggg                                                                         >  1:290645/1‑98 (MQ=255)

                                                                                             aaGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACggg                                                                         <  2:290645/98‑1 (MQ=255)

                                                                                              agagGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCgg                               >  2:515906/1‑139 (MQ=255)

                                                                                              agagGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCgg                               >  1:69838/1‑139 (MQ=255)

                                                                                                agGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTAcgcc                                       >  1:1092668/1‑129 (MQ=255)

                                                                                                agGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTAcgcc                                       <  2:275453/129‑1 (MQ=255)

                                                                                                agGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTAcgcc                                       >  1:275453/1‑129 (MQ=255)

                                                                                                agGCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTAcgcc                                       <  2:1092668/129‑1 (MQ=255)

                                                                                                  gCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACtg                                                                                                                          <  1:1086708/44‑1 (MQ=255)

                                                                                                  gCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACtg                                                                                                                          >  2:1086708/1‑44 (MQ=255)

                                                                                                  gCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGt                                                                                          >  2:203332/1‑76 (MQ=255)

                                                                                                  gCATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGt                                                                                          <  1:203332/76‑1 (MQ=255)

                                                                                                   cATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGAc                                                                                >  2:1119817/1‑85 (MQ=255)

                                                                                                   cATTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGAc                                                                                <  1:1119817/85‑1 (MQ=255)

                                                                                                    aTTTGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATgg                         >  2:123821/1‑139 (MQ=255)

                                                                                                       tGGATTGTTGAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGgtgt                      >  2:23140/1‑139 (MQ=255)

                                                                                                            tgttgAAAACATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCaaa                 <  1:949789/139‑1 (MQ=255)

                                                                                                                    aCATTGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAacac         >  1:1277920/1‑139 (MQ=255)

                                                                                                                        tGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATc                                                                                    <  2:39409/60‑1 (MQ=255)

                                                                                                                        tGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATc                                                                                    >  1:39409/1‑60 (MQ=255)

                                                                                                                        tGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGttt     >  2:411298/1‑139 (MQ=255)

                                                                                                                        tGCCGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGttt     >  2:127351/1‑139 (MQ=255)

                                                                                                                           cGATGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTAt  <  1:400148/139‑1 (MQ=255)

                                                                                                                              tGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCgg                               >  1:693916/1‑107 (MQ=255)

                                                                                                                              tGTAAGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCgg                               <  2:693916/107‑1 (MQ=255)

GGCAAATTAATACCGAACGCCAGGGAATGGTGGCGCGCGGCGTTGACGATGCTGACCAGCTTCGCGCCTTTGTGGTCAGTGAGGATCGGATGAAAGAGGCATTTGGATTGTTGAAAACATTGCCGATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGACGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGTTTTAT  >  NC_000913/2834915‑2835176

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A