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
A10 F60 I1 R1	16	40.1	1364142	98.7%	1346408	138.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,596,981	G→A	pseudogene (1106/5422 nt)	yneO ←	AIDA‑I family autotransporter YneO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,596,981	0	G	A	100.0%	166.5 / NA	47	pseudogene (1106/5422 nt)	yneO	AIDA‑I family autotransporter YneO
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/26); total (21/26)

GCCCCTGATTACTGATATTCATTTCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCGAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCGGTCACGTTGACGACACCGTGGGAACC  >  NC_000913/1596844‑1597117

gCCCCTGATTACTGATATTCATTTCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCaaa                                                                                                                                        >  2:343880/1‑140 (MQ=255)

                 ttCATTTCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCaaa                                                                                                                                        >  1:285349/1‑123 (MQ=255)

                 ttCATTTCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACt                                                                                                                       >  1:271994/1‑140 (MQ=255)

                   cATTTCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCg                                                                                                                     <  1:343880/140‑1 (MQ=255)

                     tttCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCgag                                                                                                                   <  2:54116/140‑1 (MQ=255)

                      ttCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCgaga                                                                                                                  >  2:590607/1‑140 (MQ=255)

                      ttCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCgaga                                                                                                                  >  2:31120/1‑140 (MQ=255)

                      ttCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCgag                                                                                                                   <  2:500284/139‑1 (MQ=255)

                      ttCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCgag                                                                                                                   >  1:500284/1‑139 (MQ=255)

                       tCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGAc                                                                                                                 <  1:64503/140‑1 (MQ=255)

                        cGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACa                                                                                                                <  1:377364/140‑1 (MQ=255)

                          ccGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCgag                                                                                                                   >  1:313230/1‑135 (MQ=255)

                          ccGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCgag                                                                                                                   <  2:313230/135‑1 (MQ=255)

                           cGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTa                                                                                                             >  1:208406/1‑140 (MQ=255)

                            gTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTc                                                                                                                      <  2:532450/130‑1 (MQ=255)

                            gTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTc                                                                                                                      >  1:532450/1‑130 (MQ=255)

                                        aCCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGc                                                                                                <  2:271994/140‑1 (MQ=255)

                                            aGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGc                                                                                            <  1:288069/140‑1 (MQ=255)

                                             gATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGt                                                                                                          <  1:314948/125‑1 (MQ=255)

                                             gATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGt                                                                                                          >  2:314948/1‑125 (MQ=255)

                                              aTTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGc                                                                                            >  1:372035/1‑138 (MQ=255)

                                              aTTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGc                                                                                            <  2:372035/138‑1 (MQ=255)

                                                tAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCa                                                                                        <  1:590607/140‑1 (MQ=255)

                                                tAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCa                                                                                        <  2:10703/140‑1 (MQ=255)

                                                tAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCa                                                                                        <  1:648470/140‑1 (MQ=255)

                                                tAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCa                                                                                        <  1:31120/140‑1 (MQ=255)

                                                 aGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCAc                                                                                       <  2:326466/140‑1 (MQ=255)

                                                 aGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCAc                                                                                       >  1:405837/1‑140 (MQ=255)

                                                  gTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCAcc                                                                                      <  2:484505/140‑1 (MQ=255)

                                                        agaTTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCgatata                                                                                >  2:364721/1‑140 (MQ=255)

                                                                        aGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCt                                                                <  2:441818/140‑1 (MQ=255)

                                                                               aTCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCg                                                         >  2:585415/1‑140 (MQ=255)

                                                                                     aaCAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGa                                                   >  2:501970/1‑140 (MQ=255)

                                                                                      aCAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAg                                                  >  1:586682/1‑140 (MQ=255)

                                                                                             tGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTc                                           >  1:569573/1‑140 (MQ=255)

                                                                                               ttGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCa                                         <  2:405837/140‑1 (MQ=255)

                                                                                                 gcctgtgcctgtTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAAt                                       <  2:569573/140‑1 (MQ=255)

                                                                                                    tgtgcctgtTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGcc                                    >  2:155459/1‑140 (MQ=255)

                                                                                                    tgtgcctgtTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGcc                                    >  2:116932/1‑140 (MQ=255)

                                                                                                      tgcctgtTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCt                                  >  1:100373/1‑140 (MQ=255)

                                                                                                      tgcctgtTTCTTTCATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCt                                  >  2:525339/1‑140 (MQ=255)

                                                                                                            tttctttcATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCg                            >  1:473699/1‑140 (MQ=255)

                                                                                                               ctttcATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCGGTc                         <  2:100373/140‑1 (MQ=255)

                                                                                                               ctttcATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCGGTc                         <  1:116932/140‑1 (MQ=255)

                                                                                                                tttcATCCCCGCAGTGATAATTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCGGTCa                        >  1:247548/1‑140 (MQ=255)

                                                                                                                                   aTTCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCGGTCACGTTGACGACACCGTGGGa     <  1:388824/140‑1 (MQ=255)

                                                                                                                                    ttCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCGGTCACGTTGACGACACCGTGGGaa    <  2:245638/140‑1 (MQ=255)

                                                                                                                                    ttCCCAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCGGTCACGTTGACGACACCGTGGGaa    <  1:364721/140‑1 (MQ=255)

                                                                                                                                      cccAAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCGGTCACGTTGACGACACCGTGGGAAcc  <  2:586682/140‑1 (MQ=255)

GCCCCTGATTACTGATATTCATTTCGCCGTGGCCGTCATAACCAAGATTAGTTCCGAGATTAGTGATAACGGAGTTCTTATCCTTAACAGTAATGTTGCCTGTGCCTGTTTCTTTCATCCCCGCAGTGATAATTCCCGAATCTACTTTGCCTTCACTCGAGACATTAAGTTCACCGTCGCCAGCATCACCGATATAGATATAGCGGAAAGCTTCGCCCGTTCCGAGGAAATTCCAATGCCCTTTATCGGTCACGTTGACGACACCGTGGGAACC  >  NC_000913/1596844‑1597117

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A