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
A6 F28 I1 R1	153	60.1	2040486	99.3%	2026202	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,982,684	(C)_8→9	noncoding (79/87 nt)	leuT →	tRNA‑Leu

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,982,676	1	.	C	97.0%	110.4 / ‑3.2	33	noncoding (71/87 nt)	leuT	tRNA‑Leu
Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (17/15); total (17/16)
Fisher's exact test for biased strand distribution p-value = 4.85e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTGTGATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑T‑‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCCTCTCTCGCCG  >  NC_000913/3982541‑3982807

ttGTGATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑T‑‑cccc                                                                                                                                 <  2:366283/140‑1 (MQ=255)

 tgtgATTCCAGTTGTCGTGGGTTCGAATCCCATGAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑T‑‑ccccc                                                                                                                                >  2:878436/1‑140 (MQ=255)

   tgATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑T‑‑ccccccc                                                                                                                              >  1:540757/1‑140 (MQ=255)

   tgATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑T‑‑cccc                                                                                                                                 >  1:427317/1‑137 (MQ=255)

   tgATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑T‑‑cccc                                                                                                                                 <  2:427317/137‑1 (MQ=255)

           gTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGcac                                                                                                                       >  2:979243/1‑140 (MQ=255)

             tGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGcacca                                                                                                                     >  2:332126/1‑140 (MQ=255)

             tGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGcacca                                                                                                                     <  2:540757/140‑1 (MQ=255)

             tGTCGTGGGTTAGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGcacca                                                                                                                     <  1:948192/140‑1 (MQ=255)

                     gTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTa                                                                                                             <  2:316818/140‑1 (MQ=255)

                                         cccATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTc                                                                                         >  1:38951/1‑140 (MQ=255)

                                            attattAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCaaa                                                                                      <  1:878436/140‑1 (MQ=255)

                                             ttattaGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCaaaa                                                                                     <  2:431045/140‑1 (MQ=255)

                                                   gAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑T‑‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTa                                                                              <  2:223876/140‑1 (MQ=255)

                                                    aaGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTa                                                                              <  1:668704/140‑1 (MQ=255)

                                                      gTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTAtt                                                                            >  2:880431/1‑140 (MQ=255)

                                                        tgtgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTc                                                                          >  1:861684/1‑140 (MQ=255)

                                                        tgtgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTc                                                                          >  1:654825/1‑140 (MQ=255)

                                                         gtgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCg                                                                         >  2:645386/1‑140 (MQ=255)

                                                          tgACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCgg                                                                        >  1:753165/1‑140 (MQ=255)

                                                              aaTGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAg                                                                    >  2:603605/1‑140 (MQ=255)

                                                                   gAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAgcg                                                               <  2:861684/140‑1 (MQ=255)

                                                                          gCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TCCCCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCtt                                                         >  1:209630/1‑140 (MQ=255)

                                                                            ggAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGt                                                      <  2:562546/140‑1 (MQ=255)

                                                                              aaTTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAg                                                    <  2:810640/140‑1 (MQ=255)

                                                                                   gTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCaa                                               >  2:195520/1‑140 (MQ=255)

                                                                                        ggcgcTACCTTCAGTTGTTAGTTCCCTTACGGACGTGGGGGTCCAAGCC‑‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGt                                          <  1:734193/139‑1 (MQ=255)

                                                                                            cTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTgg                                      >  1:924678/1‑140 (MQ=255)

                                                                                            cTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTgg                                      >  1:887979/1‑140 (MQ=255)

                                                                                            cTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTgg                                      <  1:603605/140‑1 (MQ=255)

                                                                                               gCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGAc                                   <  1:254149/140‑1 (MQ=255)

                                                                                                  tCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAg                                <  1:332126/140‑1 (MQ=255)

                                                                                                           aGTGTCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGa                       <  1:195520/140‑1 (MQ=255)

                                                                                                               tCCTTACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGtt                   >  2:135473/1‑140 (MQ=255)

                                                                                                                   tACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGaa               >  1:929745/1‑140 (MQ=255)

                                                                                                                   tACGGACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGaa               <  2:654825/140‑1 (MQ=255)

                                                                                                                       gACGTGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCct           >  1:220550/1‑140 (MQ=255)

                                                                                                                           tGGGGGTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCctctct       >  1:588215/1‑140 (MQ=255)

                                                                                                                                gTTCAAG‑TC‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCCTCTCTCGCCg  <  1:645386/140‑1 (MQ=255)

TTGTGATTCCAGTTGTCGTGGGTTCGAATCCCATTAGCCACCCCATTATTAGAAGTTGTGACAATGCGAAGGTGGCGGAATTGGTAGACGCGCTAGCTTCAGGTGTTAGTGTCCTTACGGACGTGGGGGTTCAAG‑T‑‑CCCCCCCCTCGCACCACGACTTTAAAGAATTGAACTAAAAATTCAAAAAGCAGTATTTCGGCGAGTAGCGCAGCTTGGTAGCGCAACTGGTTTGGGACCAGTGGGTCGGAGGTTCGAATCCTCTCTCGCCG  >  NC_000913/3982541‑3982807

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A