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
A9 F1 I2 R1	78	48.0	2243616	94.8%	2126947	114.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,218,665	T→C	T138A (ACC→GCC)	aer ←	fused signal transducer for aerotaxis sensory component/methyl accepting chemotaxis component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,218,665	0	T	C	100.0%	200.3 / NA	54	T138A (ACC→GCC)	aer	fused signal transducer for aerotaxis sensory component/methyl accepting chemotaxis component
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (27/27); total (27/27)

CCAAAGCATGGCCGCCAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGTACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGTACCGCATTGGCCCGCACCCAAT  >  NC_000913/3218534‑3218799

ccAAAGCATGGCCGCCAGCAAAATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGGGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCg                                                                                                                                 <  2:407602/139‑1 (MQ=255)

  aaaGCATGGCCGCCAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGc                                                                                                                               <  2:647243/139‑1 (MQ=255)

    aGCATGGCCGCCAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGt                                                                                                                             >  2:220069/1‑139 (MQ=255)

       aTGGCCGCCAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCa                                                                                                                          <  2:958413/139‑1 (MQ=255)

       aTGGCCGCCAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCa                                                                                                                          <  1:220069/139‑1 (MQ=255)

       aTGGCCGCCAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCa                                                                                                                          <  2:394939/139‑1 (MQ=255)

         ggCCGCCAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAAc                                                                                                                        >  1:532025/1‑139 (MQ=255)

         ggCCGCCAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAAc                                                                                                                        <  2:532025/139‑1 (MQ=255)

          gccgccAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACg                                                                                                                       <  2:1114651/139‑1 (MQ=255)

                                gggTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCAccgc                                                                                                 >  2:252927/1‑139 (MQ=255)

                                gggTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCAccgc                                                                                                 >  1:470650/1‑139 (MQ=255)

                                 ggTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCAccgcc                                                                                                >  2:477758/1‑139 (MQ=255)

                                    catcaCTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCcgcg                                                                                             <  1:163919/139‑1 (MQ=255)

                                      tcaCTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGAt                                                                                           <  1:241236/139‑1 (MQ=255)

                                           ccACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCtt                                                                                      >  1:667918/1‑139 (MQ=255)

                                             aCGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCa                                                                                    >  1:159238/1‑139 (MQ=255)

                                              cgcgCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCAt                                                                                   >  2:611474/1‑139 (MQ=255)

                                                  cccgccAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGt                                                                               >  2:23682/1‑139 (MQ=255)

                                                    cgccAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCg                                                                             >  2:471504/1‑139 (MQ=255)

                                                           gAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGt                                                                      <  1:252927/139‑1 (MQ=255)

                                                                         ggCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACatat                                                        <  2:470650/139‑1 (MQ=255)

                                                                            aGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCa                                                                                                                          >  1:298068/1‑70 (MQ=255)

                                                                            aGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCa                                                                                                                          <  2:298068/70‑1 (MQ=255)

                                                                              tttACCCAGCCAGCCTTTACGCACCACCCGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGCATCGACATATAGCCa                                                   <  2:13060/139‑1 (MQ=255)

                                                                                 aCCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCcgcg                                                                                             >  2:824777/1‑94 (MQ=255)

                                                                                 aCCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCcgcg                                                                                             <  1:824777/94‑1 (MQ=255)

                                                                                 aCCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTg                                                >  2:928699/1‑139 (MQ=255)

                                                                                       ccagccTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCg                                                                                                                                 <  1:170272/52‑1 (MQ=255)

                                                                                       ccagccTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCg                                                                                                                                 >  2:170272/1‑52 (MQ=255)

                                                                                               tACGCACCACCAGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTcgcg                                  <  2:428589/139‑1 (MQ=255)

                                                                                                     ccaccaGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCa                                                                                                                          <  1:120369/45‑1 (MQ=255)

                                                                                                     ccaccaGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCa                                                                                                                          >  2:120369/1‑45 (MQ=255)

                                                                                                     ccaccaGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTAc                                                                                                               <  2:991745/56‑1 (MQ=255)

                                                                                                     ccaccaGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTAc                                                                                                               >  1:991745/1‑56 (MQ=255)

                                                                                                     ccaccaGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCAt                            <  1:928699/139‑1 (MQ=255)

                                                                                                      caccaGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACg                                                                                                                       <  1:517528/47‑1 (MQ=255)

                                                                                                      caccaGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACg                                                                                                                       >  2:517528/1‑47 (MQ=255)

                                                                                                      caccaGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCgcgc                                 <  2:1042740/133‑1 (MQ=255)

                                                                                                      caccaGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCgcgc                                 >  1:1042740/1‑133 (MQ=255)

                                                                                                         caGGCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGt                        >  2:580400/1‑139 (MQ=255)

                                                                                                           ggCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGTAc                      >  2:395459/1‑139 (MQ=255)

                                                                                                            gCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCa                                                                                                                          <  2:7542/38‑1 (MQ=255)

                                                                                                            gCCTTTATGAATACGCTTACTGGCACGTCCGGCGTTCa                                                                                                                          >  1:7542/1‑38 (MQ=255)

                                                                                                                 tATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCggg                                                                       <  1:696111/84‑1 (MQ=255)

                                                                                                                 tATGAATACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCggg                                                                       >  2:696111/1‑84 (MQ=255)

                                                                                                                      aTACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGTACCGCATTGGccc           >  2:1108768/1‑139 (MQ=255)

                                                                                                                       tACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGTACCGCATTGGCCCg          <  1:566356/139‑1 (MQ=255)

                                                                                                                       tACGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGTACCGCATTGGCCCg          <  1:471504/139‑1 (MQ=255)

                                                                                                                        aCGCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACGGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGTACCGCATTGGCCCGc         <  1:804482/139‑1 (MQ=255)

                                                                                                                          gCTTACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGAGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTGTCCCTAGCGCACCATCGGTACCGCATTGGCCCGCAc       >  2:703163/1‑139 (MQ=255)

                                                                                                                             tACTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGTACCGCATTGGCCCGCACCCa    >  1:870972/1‑139 (MQ=255)

                                                                                                                               cTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATc                                                               >  2:646606/1‑78 (MQ=255)

                                                                                                                               cTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATc                                                               <  1:646606/78‑1 (MQ=255)

                                                                                                                               cTGGCACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGTACCGCATTGGCCCGCACCCaat  >  2:423438/1‑139 (MQ=255)

CCAAAGCATGGCCGCCAGCAAGATAAACATCAGGGTCATCACTCCACGCGCCCGCCAGCGAAGCGGTAATGAAGGCAGTTTACCCAGCCAGCCTTTACGCACCACCAGGCCTTTATGAATACGCTTACTGGTACGTCCGGCGTTCAACGCTTTGTACAGCGGCTCCACCGCCGCGATCTCTTCATCCGTCGCCCGGGTACGAATCGACATATAGCCACTGATTTTTCCCTCGCGCACCATCGGTACCGCATTGGCCCGCACCCAAT  >  NC_000913/3218534‑3218799

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A