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
A1 F1 I1 R1	773	79.9	4112934	92.2%	3792125	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,380,807	G→A	220 (TAG→TAA)	ycjU →	beta‑phosphoglucomutase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,380,807	0	G	A	100.0%	144.0 / NA	45	220 (TAG→TAA)	ycjU	beta‑phosphoglucomutase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/24); total (21/24)

TGACGCCATTAACGCCAGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAGCAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTC  >  NC_000913/1380678‑1380936

tGACGCCATTAACGCCAGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAAt                                                                                                                          <  1:2003834/139‑1 (MQ=255)

          aaCGCCAGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCt                                                                                                                <  2:1501039/139‑1 (MQ=255)

          aaCGCCAGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTGCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACATATAACAAAGGAATCATCATGGCt                                                                                                                <  2:1256670/139‑1 (MQ=255)

               cAGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCt                                                                                                           <  1:1174384/139‑1 (MQ=255)

                aGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCtt                                                                                                          >  2:1655273/1‑139 (MQ=255)

                aGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCtt                                                                                                          <  2:1966752/139‑1 (MQ=255)

                            tCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACat                                                                                              >  1:566527/1‑139 (MQ=255)

                               gTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATAtt                                                                                           >  2:54493/1‑139 (MQ=255)

                               gTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATAtt                                                                                           >  2:1656278/1‑139 (MQ=255)

                               gTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATAtt                                                                                           >  2:299350/1‑139 (MQ=255)

                                       cGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAAt                                                                                   <  1:299350/139‑1 (MQ=255)

                                        ggCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGtt                                                                                                     <  2:451675/120‑1 (MQ=255)

                                        ggCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGtt                                                                                                     >  1:451675/1‑120 (MQ=255)

                                        ggCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATc                                                                                  >  1:524254/1‑139 (MQ=255)

                                        ggCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATc                                                                                  >  1:822632/1‑139 (MQ=255)

                                              ggCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGAt                                                                            >  1:999730/1‑139 (MQ=255)

                                                 ttAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAAc                                                                         <  2:524254/139‑1 (MQ=255)

                                                        gggCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACa                                                                                                                     <  1:521821/88‑1 (MQ=255)

                                                        gggCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACa                                                                                                                     >  2:521821/1‑88 (MQ=255)

                                                         ggCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCttt                                                                                                         >  2:242165/1‑99 (MQ=255)

                                                         ggCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCttt                                                                                                         <  1:242165/99‑1 (MQ=255)

                                                                  aCTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGaa                                                        <  2:163439/139‑1 (MQ=255)

                                                                        gCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACtt                                                  <  1:442776/139‑1 (MQ=255)

                                                                        gCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACtt                                                  <  1:1656278/139‑1 (MQ=255)

                                                                        gCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACtt                                                  <  1:54493/139‑1 (MQ=255)

                                                                           ttCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCt                                                                                                           <  1:985260/79‑1 (MQ=255)

                                                                           ttCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCt                                                                                                           >  2:985260/1‑79 (MQ=255)

                                                                                   aaTCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGaaa                                       <  2:566527/139‑1 (MQ=255)

                                                                                      cactcacCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTg                                    <  1:1655273/139‑1 (MQ=255)

                                                                                         tcacCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCg                                 <  2:999730/139‑1 (MQ=255)

                                                                                            ccTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACaa                                                                                                                                <  2:1806465/41‑1 (MQ=255)

                                                                                            ccTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACaa                                                                                                                                >  1:1806465/1‑41 (MQ=255)

                                                                                                gCCGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAaga                          >  1:2015012/1‑139 (MQ=255)

                                                                                                 ccGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCt                                                                                                           <  1:671704/57‑1 (MQ=255)

                                                                                                 ccGCGGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCt                                                                                                           >  2:671704/1‑57 (MQ=255)

                                                                                                  cgcgGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCtt                                                                                                          <  1:867384/57‑1 (MQ=255)

                                                                                                  cgcgGTTATCGGCCTTCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCtt                                                                                                          >  2:867384/1‑57 (MQ=255)

                                                                                                                 tCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAAt                                      <  1:939268/110‑1 (MQ=255)

                                                                                                                 tCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAAt                                      >  2:939268/1‑110 (MQ=255)

                                                                                                                 tCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGc                                   >  2:147403/1‑113 (MQ=255)

                                                                                                                 tCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGc                                   <  1:147403/113‑1 (MQ=255)

                                                                                                                 tCTGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCg         >  1:748640/1‑139 (MQ=255)

                                                                                                                   tGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCaaa                                                                                       <  2:1263804/59‑1 (MQ=255)

                                                                                                                   tGGCAAAACGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCaaa                                                                                       >  1:1263804/1‑59 (MQ=255)

                                                                                                                        aaaCGTATAACAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTc  >  1:296087/1‑139 (MQ=255)

TGACGCCATTAACGCCAGCGGTATGCGCTCGGTGGGGATCGGCGCGGGCTTAACCGGGGCGCAATTACTGTTGCCTTCAACGGAATCACTCACCTGGCCGCGGTTATCGGCCTTCTGGCAAAACGTATAGCAAAGGAATCAACATGGCTCAGCTTTCGTTACAACATATTCAAAAAATCTACGATAACCAGGTGCATGTGGTGAAGGACTTCAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTC  >  NC_000913/1380678‑1380936

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A