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 I1 R1	748	32.0	1685426	92.6%	1560704	103.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,061,157	G→A	237 (TAG→TAA)	yihL →	putative DNA‑binding transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,061,157	0	G	A	100.0%	133.8 / NA	42	237 (TAG→TAA)	yihL	putative DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (19/23); total (19/23)

TCTTGGCGGTTCTGCGGGTATGCCAGCGATCTTAATTGAAAAGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAGGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATGCGGCTGGAAAGAGTGTTGCCTGCTGATTTACTTG  >  NC_000913/4061028‑4061288

tCTTGGCGGTTCTGCGGGTATGCCAGCGATCTTAATTGAAAAGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTAt                                                                                                                            >  2:215773/1‑139 (MQ=255)

  ttGGCGGTTCTGCGGGTATGCCAGCGATCTTAATTGAAAAGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATgg                                                                                                                          <  1:303543/139‑1 (MQ=255)

   tGGCGGTTCTGCGGGTATGCCAGCGATCTTAATTGAAAAGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATATGTAAGTGTTTTATGGt                                                                                                                         <  2:751561/139‑1 (MQ=255)

                     gCCAGCGATCTTAATTGAAAAGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCaag                                                                                                       >  2:27943/1‑139 (MQ=255)

                     gCCAGCGATCTTAATTGAAAAGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCaag                                                                                                       <  1:391215/139‑1 (MQ=255)

                       cAGCGATCTTAATTGAAAAGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCaagaa                                                                                                     <  2:360065/139‑1 (MQ=255)

                        aGCGATCTTAATTGAAAAGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCaagaaa                                                                                                    <  2:430767/139‑1 (MQ=255)

                                      aaaaGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAAAgtg                                                                                      >  2:578602/1‑139 (MQ=255)

                                          gCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGa                                                                                  <  1:27943/139‑1 (MQ=255)

                                                  ccGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTc                                                                          <  1:669194/139‑1 (MQ=255)

                                                      ccAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCctct                                                                      <  1:7407/139‑1 (MQ=255)

                                                                 atatTGTCCAAATAGATATTGAATATTGGCGATTTGCGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCaagaaa                                                                                                    >  2:641070/1‑98 (MQ=255)

                                                                 atatTGTCCAAATAGATATTGAATATTGGCGATTTGCGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCaagaaa                                                                                                    <  1:641070/98‑1 (MQ=255)

                                                                        ccAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATgg                                                                                                                          >  2:438658/1‑69 (MQ=255)

                                                                        ccAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATgg                                                                                                                          <  1:438658/69‑1 (MQ=255)

                                                                            aTAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATgg                                                                                                                          >  1:270465/1‑65 (MQ=255)

                                                                            aTAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATgg                                                                                                                          <  2:270465/65‑1 (MQ=255)

                                                                            aTAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCtttattta                                                               >  2:499417/1‑124 (MQ=255)

                                                                            aTAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCtttattta                                                               <  1:499417/124‑1 (MQ=255)

                                                                                 tatTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCt                                                         <  1:494221/125‑1 (MQ=255)

                                                                                 tatTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCt                                                         >  2:494221/1‑125 (MQ=255)

                                                                                      aaTATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAata                                      <  1:215773/139‑1 (MQ=255)

                                                                                             gCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAAc                                                                                                            >  1:103899/1‑62 (MQ=255)

                                                                                             gCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAAc                                                                                                            <  2:103899/62‑1 (MQ=255)

                                                                                             gCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATGCGGCt                               >  2:296801/1‑139 (MQ=255)

                                                                                             gCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATGCGGCt                               <  1:578602/139‑1 (MQ=255)

                                                                                                  ttGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTAc                                                              <  2:515099/103‑1 (MQ=255)

                                                                                                  ttGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATg                                    >  1:608207/1‑129 (MQ=255)

                                                                                                  ttGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATg                                    <  2:608207/129‑1 (MQ=255)

                                                                                                  atGAGGCCGTAGACCTCATCATTAATCTGTAAGTGTTTTATAGTGACAATAAATAACGCAAGAAAGATTCTACTACGTGTCGACACTCTTCCTCTTTATTTAc                                                              >  1:515099/2‑103 (MQ=255)

                                                                                                           tAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTc                                                                          <  1:729309/82‑1 (MQ=255)

                                                                                                           tAGACCTCATCATTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTc                                                                          >  2:729309/1‑82 (MQ=255)

                                                                                                                   atcatTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAAc                                                                                         <  2:524359/59‑1 (MQ=255)

                                                                                                                   atcatTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACActc                                                                             <  2:164634/71‑1 (MQ=255)

                                                                                                                   atcatTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACActc                                                                             >  1:164634/1‑71 (MQ=255)

                                                                                                                   atcatTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATGCGGCTGGAAAGAGTGTTGCCTGCTGAt         >  2:467913/1‑139 (MQ=255)

                                                                                                                   atcatTAATCTGTAAGTATTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAAc                                                                                         >  1:524359/1‑59 (MQ=255)

                                                                                                                     catTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACgtgt                                                                                     >  2:225555/1‑61 (MQ=255)

                                                                                                                     catTAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACgtgt                                                                                     <  1:225555/61‑1 (MQ=255)

                                                                                                                        tAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATGCGGCTGGAAAGAGTGTTGCctgc             >  2:596985/1‑130 (MQ=255)

                                                                                                                        tAATCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATGCGGCTGGAAAGAGTGTTGCctgc             <  1:596985/130‑1 (MQ=255)

                                                                                                                          aTCTGTAAGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATGCGGCTGGAAAGAGTGTTGCCTGCTGATTTACTTg  >  2:312897/1‑139 (MQ=255)

TCTTGGCGGTTCTGCGGGTATGCCAGCGATCTTAATTGAAAAGCATCGCGCCGACCAGCAAGGCAATATTGTCCAAATAGATATTGAATATTGGCGATTTGAGGCCGTAGACCTCATCATTAATCTGTAGGTGTTTTATGGTGACAATAAATAACGCAAGAAAGATTCTACAACGTGTCGACACTCTTCCTCTTTATTTACATGCTTATGCCTTTCATTTAAATATGCGGCTGGAAAGAGTGTTGCCTGCTGATTTACTTG  >  NC_000913/4061028‑4061288

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