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
A3 F1 I2 R1	777	59.2	2955938	92.5%	2734242	106.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,372,254	G→A	G107G (GGC→GGT)	nanT ←	sialic acid transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,372,254	0	G	A	100.0%	144.2 / NA	45	G107G (GGC→GGT)	nanT	sialic acid transporter
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (24/21); total (24/21)

TTGTTACGCAGATGTTTTGGCCAGCTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAGCCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCATAGCGCCGAGCATCAGGCCGCCGAACCAGCGAGAGATAAAGGCTGC  >  NC_000913/3372144‑3372388

ttGTTACGCAGATGTTTTGGCCAGCTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTcc                                                                                                            >  1:1183306/1‑139 (MQ=255)

ttGTTACGCAGATGTTTTGGCCAGCTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTcc                                                                                                            <  2:1183306/139‑1 (MQ=255)

       gCAGATGTTTTGGCCAGCTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCga                                                                                                     >  1:254323/1‑139 (MQ=255)

             gTTTTGGCCAGCTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCgagaagag                                                                                               <  2:1239184/139‑1 (MQ=255)

               tttGGCCAGCTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCgagaagagaa                                                                                             <  1:900830/139‑1 (MQ=255)

                  ggCCAGCTTTCAATGACATAGGTGGCGCTGGGACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGa                                                                                          <  1:1159853/139‑1 (MQ=255)

                        cTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGcc                                                                                                                   <  2:360966/108‑1 (MQ=255)

                        cTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGcc                                                                                                                   >  1:360966/1‑108 (MQ=255)

                        cTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTgg                                                                                    >  1:722426/1‑139 (MQ=255)

                            cAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGAc                                                                                <  1:685670/139‑1 (MQ=255)

                                  cATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCa                                                                                                                       <  2:752503/94‑1 (MQ=255)

                                  cATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCa                                                                                                                       >  1:752503/1‑94 (MQ=255)

                                       gTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAgac                                                                     <  2:254323/139‑1 (MQ=255)

                                           cgcTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGAc                                                                                <  2:1090400/124‑1 (MQ=255)

                                           cgcTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGAc                                                                                >  1:1090400/1‑124 (MQ=255)

                                           cgcTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGacgacg                                                                 >  1:558036/1‑139 (MQ=255)

                                             cTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAgg                                                                                                                     >  2:896993/1‑85 (MQ=255)

                                             cTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAgg                                                                                                                     <  1:896993/85‑1 (MQ=255)

                                                gAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGt                                                            >  2:468758/1‑139 (MQ=255)

                                                    cGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAgacgac                                                                  <  1:95336/129‑1 (MQ=255)

                                                    cGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAgacgac                                                                  >  2:95336/1‑129 (MQ=255)

                                                     gTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCgg                                                       <  1:468758/139‑1 (MQ=255)

                                                       aTTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTc                                                     <  1:20478/139‑1 (MQ=255)

                                                           aCCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCAccc                                                 >  2:798430/1‑139 (MQ=255)

                                                             ccGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCa                                                                              >  1:229233/1‑108 (MQ=255)

                                                             ccGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCa                                                                              <  2:229233/108‑1 (MQ=255)

                                                                    ccccATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCATAGCGCCg                                        <  2:1328694/139‑1 (MQ=255)

                                                                       cATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCATAGCGCCGAGc                                     >  1:858/1‑139 (MQ=255)

                                                                              aTGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCg                                                                                                                         <  1:479862/48‑1 (MQ=255)

                                                                              aTGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCg                                                                                                                         >  2:479862/1‑48 (MQ=255)

                                                                              aTGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGcc                                                                                                       >  1:834999/1‑66 (MQ=255)

                                                                              aTGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGcc                                                                                                       <  2:834999/66‑1 (MQ=255)

                                                                              aTGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCg                                                        <  2:930702/113‑1 (MQ=255)

                                                                              aTGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCg                                                        >  1:930702/1‑113 (MQ=255)

                                                                               tGACCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCATAGCGCCGAGCATCAGgcc                             >  1:777896/1‑139 (MQ=255)

                                                                                 aCCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCg                                                                                                                         >  2:185725/1‑45 (MQ=255)

                                                                                 aCCAGACGAGCGATAAACATGGTGATGTAACCTGGCGCAAAGCCg                                                                                                                         <  1:185725/45‑1 (MQ=255)

                                                                                           cGATAAACATGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCATAGCGCCGAGCATCAGGCCGCCGAACCAGCg                 >  2:848879/1‑139 (MQ=255)

                                                                                                    tGGTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCATAGCGCCGAGCATCAGGCCGCCGAACCAGCGAGAGATaaa        >  2:356170/1‑139 (MQ=255)

                                                                                                     ggTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCAt                                               <  2:1073659/99‑1 (MQ=255)

                                                                                                     ggTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCAt                                               >  1:1073659/1‑99 (MQ=255)

                                                                                                     ggTGATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCATAGCGCCGAGCATCAGGCCGCCGAACCAGCGAGAGATAAAg       >  2:1185723/1‑139 (MQ=255)

                                                                                                        gATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAgac                                                                     >  2:1125697/1‑74 (MQ=255)

                                                                                                        gATGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAgac                                                                     <  1:1125697/74‑1 (MQ=255)

                                                                                                          tGTAACCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCATAGCGCCGAGCATCAGGCCGCCGAACCAGCGAGAGATAAAGGCTGc  >  1:1055788/1‑139 (MQ=255)

TTGTTACGCAGATGTTTTGGCCAGCTTTCAATGACATAGGTGGCGCTGGAACCGTATTCACCCGCCATCCCCATGCCGATGACCAGACGAGCGATAAACATGGTGATGTAGCCTGGCGCAAAGCCGCAGGCCAGCGTCCCGGCCGAGAAGAGAACGATGCTGGTGACCATTGCCAGACGACGCCCGTAGCGGTCACCCATAGCGCCGAGCATCAGGCCGCCGAACCAGCGAGAGATAAAGGCTGC  >  NC_000913/3372144‑3372388

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `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