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
A14 F1 I2 R1	70	59.9	2639336	94.5%	2494172	113.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,129,594	G→A	pseudogene (550/1101 nt)	yghO ←	pseudogene, IS‑interrupted

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,129,594	0	G	A	100.0%	191.9 / NA	55	pseudogene (550/1101 nt)	yghO	pseudogene, IS‑interrupted
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (27/28); total (27/28)

GGTCGCGAATTCATGTTCGGTAAACGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCGCACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTGG  >  NC_000913/3129460‑3129729

ggTCGCGAATTCATGTTCGGTAAACGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACACAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACAcc                                                                                                                                     <  2:389128/139‑1 (MQ=255)

     cgAATTCATGTTCGGTAAACGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATc                                                                                                                                >  2:371859/1‑139 (MQ=255)

        aTTCATGTTCGGTAAACGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCAt                                                                                                                             <  2:318491/139‑1 (MQ=255)

            aTGTTCGGTAAACGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACAcc                                                                                                                                     >  1:863650/1‑127 (MQ=255)

            aTGTTCGGTAAACGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACAcc                                                                                                                                     <  2:863650/127‑1 (MQ=255)

                  ggTAAACGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGttttttt                                                                                                                   >  1:263000/1‑139 (MQ=255)

                       aCGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAgcgc                                                                                                              <  1:910075/139‑1 (MQ=255)

                        cGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGcc                                                                                                             >  2:387012/1‑139 (MQ=255)

                         ggCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCg                                                                                                            <  2:1128801/139‑1 (MQ=255)

                           cacaAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGga                                                                                                          >  1:737293/1‑139 (MQ=255)

                           cacaAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGga                                                                                                          <  2:147979/139‑1 (MQ=255)

                                aTCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGaa                                                                                                     <  1:543559/139‑1 (MQ=255)

                                  ccccAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAg                                                                                                   <  2:199420/139‑1 (MQ=255)

                                     cAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTga                                                                                                >  2:1272327/1‑139 (MQ=255)

                                       gTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTgaga                                                                                              <  1:460595/139‑1 (MQ=255)

                                              tgcCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTc                                                                                       <  1:18770/139‑1 (MQ=255)

                                               gccagccaGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCg                                                                                      <  2:319618/139‑1 (MQ=255)

                                               gccagccaGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCg                                                                                      <  1:10249/139‑1 (MQ=255)

                                               gccagccaGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCg                                                                                      <  2:926475/139‑1 (MQ=255)

                                                  agccagAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCCGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCGGGAGAGAAAGTGAGATCGGTGGGCTg                                                                                   >  1:783767/1‑139 (MQ=255)

                                                    ccagAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGgaga                                                                                                        >  2:175029/1‑116 (MQ=255)

                                                    ccagAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGgaga                                                                                                        <  1:175029/116‑1 (MQ=255)

                                                    ccagAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCa                                                                                 <  1:341664/139‑1 (MQ=255)

                                                    ccagAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCa                                                                                 <  1:1112154/139‑1 (MQ=255)

                                                     cagAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCAt                                                                                >  1:496255/1‑139 (MQ=255)

                                                       gagTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATcc                                                                              >  1:713264/1‑139 (MQ=255)

                                                          ttGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATccacc                                                                           <  1:1272327/139‑1 (MQ=255)

                                                             aaaaTCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACg                                                                        >  1:1048516/1‑139 (MQ=255)

                                                                    cACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCGTCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTaa                                                                 >  1:833194/1‑139 (MQ=255)

                                                                    cACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTaa                                                                 >  2:820668/1‑139 (MQ=255)

                                                                    cACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTaa                                                                 >  1:232775/1‑139 (MQ=255)

                                                                      cGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAAt                                                               <  2:1213152/139‑1 (MQ=255)

                                                                           gATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATg                                                          >  1:654425/1‑139 (MQ=255)

                                                                             tCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGcc                                                        <  1:371859/139‑1 (MQ=255)

                                                                                     tctTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGAt                                                >  2:260835/1‑139 (MQ=255)

                                                                                         cGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAAcc                                            >  1:1048150/1‑139 (MQ=255)

                                                                                         cGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAAcc                                            >  2:707759/1‑139 (MQ=255)

                                                                                         cGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAAcc                                            >  1:1148400/1‑139 (MQ=255)

                                                                                           gCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCA‑‑AGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAgt                                        <  1:557203/139‑1 (MQ=255)

                                                                                                          ttGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATgcg                           <  2:713264/139‑1 (MQ=255)

                                                                                                          ttGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATgcg                           <  2:764698/139‑1 (MQ=255)

                                                                                                           tGATGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATgcgc                          >  2:895918/1‑139 (MQ=255)

                                                                                                             aTGCAGCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATGCGCgg                        <  2:1062443/139‑1 (MQ=255)

                                                                                                                  gCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAatat                              <  2:1235609/128‑1 (MQ=255)

                                                                                                                  gCGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAatat                              >  1:1235609/1‑128 (MQ=255)

                                                                                                                   cGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCa                                          <  2:1056095/115‑1 (MQ=255)

                                                                                                                   cGAATGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCa                                          >  1:1056095/1‑115 (MQ=255)

                                                                                                                     aaTGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGgag                                                                                                         >  1:142310/1‑50 (MQ=255)

                                                                                                                     aaTGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGgag                                                                                                         <  2:142310/50‑1 (MQ=255)

                                                                                                                     aaTGGTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATGCGCGGCATACCAc                >  1:504266/1‑139 (MQ=255)

                                                                                                                         gTCACCTTTTTGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATGCGCGGCATACCACGGtt            >  1:31764/1‑139 (MQ=255)

                                                                                                                                  ttGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCtt                                                      <  2:1184187/88‑1 (MQ=255)

                                                                                                                                  ttGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCtt                                                      >  1:1184187/1‑88 (MQ=255)

                                                                                                                                   tGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTgg  >  2:563478/1‑139 (MQ=255)

                                                                                                                                   tGCACACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTgg  <  1:370555/139‑1 (MQ=255)

GGTCGCGAATTCATGTTCGGTAAACGGCACAAATCCCCAGTTGTGCTGCCAGCCAGAGTTGAAAATCTCACGCAGGATCTGCATCTCTTCGGCAAACCGCTGACGATTGATGCAGCGAATGGTCACCTTTTTGCGCACCTGATCCATCAGTTTTTTTAGCGCCGGAGAGAAAGTGAGATCGGTTCGCTGCATCCACCACGCCAGTAAATCAATGCCTTTGTGATAACCCAGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTGG  >  NC_000913/3129460‑3129729

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