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
A5 F28 I1 R1	260	73.5	2514320	99.3%	2496719	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,017,280	C→T	P243S (CCG→TCG)	fliI →	flagellum‑specific ATP synthase FliI

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,017,280	0	C	T	100.0%	168.7 / NA	49	P243S (CCG→TCG)	fliI	flagellum‑specific ATP synthase FliI
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (24/25); total (24/25)

TACACCCGCGCCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTCCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCACCCGCTACGCGATGGCCCAGCGTGAAAT  >  NC_000913/2017145‑2017404

tACACCCGCGCCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCt                                                                                                                          <  1:212824/140‑1 (MQ=255)

 acacCCGCGCCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTc                                                                                                                         >  2:739190/1‑140 (MQ=255)

      cgcgCCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCg                                                                                                                    >  2:905191/1‑140 (MQ=255)

        cgcCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGaa                                                                                                                  >  1:427788/1‑140 (MQ=255)

        cgcCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGaa                                                                                                                  >  2:643131/1‑140 (MQ=255)

        cgcCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGaa                                                                                                                  >  2:721974/1‑140 (MQ=255)

        cgcCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGaa                                                                                                                  >  2:214921/1‑140 (MQ=255)

        cgcCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGaa                                                                                                                  >  2:796351/1‑140 (MQ=255)

        cgcCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGaa                                                                                                                  >  1:948457/1‑140 (MQ=255)

          ccGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATg                                                                                                                >  2:896209/1‑140 (MQ=255)

           cGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGc                                                                                                               <  1:896209/140‑1 (MQ=255)

            gATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCa                                                                                                              <  1:688822/140‑1 (MQ=255)

              tGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAgg                                                                                                            <  1:900181/140‑1 (MQ=255)

                tCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGt                                                                                                          <  1:465103/140‑1 (MQ=255)

                 cATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTg                                                                                                         <  1:948642/140‑1 (MQ=255)

                   ttGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGt                                                                                                          <  1:626107/137‑1 (MQ=255)

                   ttGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGt                                                                                                          >  2:626107/1‑137 (MQ=255)

                             tttGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCa                                                                                             >  2:935875/1‑140 (MQ=255)

                                 aTTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCAcgcg                                                                                         <  2:1165458/140‑1 (MQ=255)

                                        aaCGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGcc                                                                                  >  2:774583/1‑140 (MQ=255)

                                             gggCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGa                                                                             >  2:779866/1‑140 (MQ=255)

                                              ggCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGAt                                                                            >  1:833700/1‑140 (MQ=255)

                                                  cgAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTc                                                                        >  2:1192540/1‑140 (MQ=255)

                                                   gAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAGGGGCGTGCACGCCCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCCCGCGCATTGCCGAAGATTTTcg                                                                       <  2:151311/140‑1 (MQ=255)

                                                        aaaaGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATc                                                                  <  2:833700/140‑1 (MQ=255)

                                                        aaaaGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATc                                                                  <  2:948457/140‑1 (MQ=255)

                                                         aaaGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCg                                                                 <  1:1192540/140‑1 (MQ=255)

                                                           aGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTg                                                               <  1:643131/140‑1 (MQ=255)

                                                            gATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTgg                                                              <  1:117420/140‑1 (MQ=255)

                                                             aTTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGt                                                             <  1:77254/140‑1 (MQ=255)

                                                                   ttGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCAt                                                       <  1:796351/140‑1 (MQ=255)

                                                                   ttGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCAt                                                       <  2:765840/140‑1 (MQ=255)

                                                                        aaCATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGtt                                                  <  1:935875/140‑1 (MQ=255)

                                                                          cATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGc                                                <  1:602465/140‑1 (MQ=255)

                                                                          cATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGc                                                <  1:721974/140‑1 (MQ=255)

                                                                            tCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTg                                              <  1:739190/140‑1 (MQ=255)

                                                                                   tGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATgg                                       <  2:427788/140‑1 (MQ=255)

                                                                                     ccGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGAc                                     >  1:354801/1‑140 (MQ=255)

                                                                                             cGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCAc                             >  1:463928/1‑140 (MQ=255)

                                                                                               tGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCAccc                           >  1:428838/1‑140 (MQ=255)

                                                                                               tGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCAccc                           >  1:34280/1‑140 (MQ=255)

                                                                                                gCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCACCCg                          <  1:214921/140‑1 (MQ=255)

                                                                                                   cGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCACCCGCTa                       <  2:354801/140‑1 (MQ=255)

                                                                                                     cTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCACCCGCTAcg                     >  2:1150206/1‑140 (MQ=255)

                                                                                                               aTTGCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCACCCGCTACGCGATGGCCCa           >  1:172102/1‑140 (MQ=255)

                                                                                                                  gCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCACCCGCTACGCGATGGCCCAGCg        >  2:1131380/1‑140 (MQ=255)

                                                                                                                  gCCGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACCCCCTCACCCGCTACGCGATGGCCCAGCg        >  1:406478/1‑140 (MQ=255)

                                                                                                                    cGCTCCGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCACCCGCTACGCGATGGCCCAGCGTg      >  2:77736/1‑140 (MQ=255)

                                                                                                                        ccGGCGGATGTTTCTTCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCACCCGCTACGCGATGGCCCAGCGTGAAAt  <  1:77736/140‑1 (MQ=255)

TACACCCGCGCCGATGTCATTGTCGTGGGTTTGATTGGTGAACGTGGGCGCGAAGTAAAAGATTTTATTGAGAACATCCTCGGTGCCGAAGGGCGTGCACGCTCAGTGGTGATTGCCGCTCCGGCGGATGTTTCTCCGCTCCTGCGAATGCAGGGTGCCGCCTATGCCACGCGCATTGCCGAAGATTTTCGCGATCGTGGTCAGCATGTGTTGCTGATTATGGACTCCCTCACCCGCTACGCGATGGCCCAGCGTGAAAT  >  NC_000913/2017145‑2017404

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A