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	2,140,895	G→A	Q240* (CAG→TAG)	asmA ←	suppressor of OmpF assembly mutants, putative outer membrane protein assembly factor, inner membrane‑anchored periplasmic protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,140,895	0	G	A	100.0%	145.1 / NA	46	Q240* (CAG→TAG)	asmA	suppressor of OmpF assembly mutants, putative outer membrane protein assembly factor, inner membrane‑anchored periplasmic protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/25); total (21/25)

TTCCGGTTTCTCTGTCAGCGTAACCTGTGCTTGCCCGCTTAGCGTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTGCCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAGGGATATCGTGAGATCGC  >  NC_000913/2140770‑2141023

ttCCGGTTTCTCTGTCAGCGTAACCTGTGCTTGCCCGATTAGCCTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTACTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCt                                                                                                                     >  2:983105/1‑139 (MQ=255)

           ctGTCAGCGTAACCTGTGCTTGCCCGCTTAGCGTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTaa                                                                                                          >  1:468183/1‑139 (MQ=255)

               cAGCGTAACCTGTGCTTGCCCGCTTAGCGTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCg                                                                                                      <  1:432671/139‑1 (MQ=255)

                aGCGTAACCTGTGCTTGCCCGCTTAGCGTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCgg                                                                                                     <  1:541892/139‑1 (MQ=255)

                            gCTTGCCCGCTTAGCGTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAAt                                                                                                        <  2:1442577/124‑1 (MQ=255)

                            gCTTGCCCGCTTAGCGTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAAt                                                                                                        >  1:1442577/1‑124 (MQ=255)

                               tGCCCGCTTAGCGTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGcc                                                                                      >  2:229879/1‑139 (MQ=255)

                                 cccGCTTAGCGTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAg                                                                                    <  1:826725/139‑1 (MQ=255)

                                                  cATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAgc                                                                   <  1:744234/139‑1 (MQ=255)

                                                      ggCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAgccgcc                                                               >  1:975665/1‑139 (MQ=255)

                                                       gCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAgc                                                                   <  1:1162699/134‑1 (MQ=255)

                                                       gCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAgc                                                                   >  2:1162699/1‑134 (MQ=255)

                                                         ggTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTcccctacc                                                                                                                                <  1:793318/71‑1 (MQ=255)

                                                         ggTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGtt                                                            >  1:641838/1‑139 (MQ=255)

                                                           tCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTaa                                                          >  2:501318/1‑139 (MQ=255)

                                                             aaaCTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTa                                                                                                           <  2:1343/88‑1 (MQ=255)

                                                             aaaCTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTa                                                                                                           >  1:1343/1‑88 (MQ=255)

                                                                    tttGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCgg                                                 <  1:229879/139‑1 (MQ=255)

                                                                         ttAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAAt                                            >  2:504210/1‑139 (MQ=255)

                                                                            aaTGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAg                                         <  2:975665/139‑1 (MQ=255)

                                                                                  aGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGACTACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCAGATAATCAGAAGCAt                                   <  1:983105/139‑1 (MQ=255)

                                                                                       tttATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCtacc                              <  2:641838/139‑1 (MQ=255)

                                                                                         taggtgACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCGGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCtagcgt                            <  2:1000671/136‑1 (MQ=255)

                                                                                          aTGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCtaccgta                           <  1:504210/139‑1 (MQ=255)

                                                                                           tgtgACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCtaccgtac                          <  2:551707/139‑1 (MQ=255)

                                                                                           tgtgACTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCtaccgtac                          <  1:501318/139‑1 (MQ=255)

                                                                                               aCTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGGATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGtt                      >  1:1465094/1‑139 (MQ=255)

                                                                                               aCTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCtaccgta                           >  2:30555/1‑134 (MQ=255)

                                                                                               aCTCCTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCtaccgta                           <  1:30555/134‑1 (MQ=255)

                                                                                                  ccTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAgc                                                                   >  1:1110056/1‑91 (MQ=255)

                                                                                                  ccTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAgc                                                                   <  2:1110056/91‑1 (MQ=255)

                                                                                                   cTGCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAgg                  >  2:412734/1‑139 (MQ=255)

                                                                                                     gCCACTGGGCCTGGAAACTCCCCTACCCCTGGATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAGGGa                <  2:1465094/139‑1 (MQ=255)

                                                                                                     gCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGc                                                                                       >  1:175937/1‑68 (MQ=255)

                                                                                                     gCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGc                                                                                       <  2:175937/68‑1 (MQ=255)

                                                                                                     gCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAgc                                                                   <  2:198986/88‑1 (MQ=255)

                                                                                                     gCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAgc                                                                   >  1:198986/1‑88 (MQ=255)

                                                                                                     gCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAGGGa                >  2:954838/1‑139 (MQ=255)

                                                                                                     gCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAGGGa                <  2:468183/139‑1 (MQ=255)

                                                                                                     gCCACTGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAGGGa                <  1:621330/139‑1 (MQ=255)

                                                                                                          tGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAGGGa                <  2:374801/134‑1 (MQ=255)

                                                                                                          tGGGCCTGGAAACTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAGGGa                >  1:374801/1‑134 (MQ=255)

                                                                                                                   aaaCTCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAGGGATATCGTGAGATcgc  >  1:1333771/1‑139 (MQ=255)

                                                                                                                       tCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCaa                                                                                           <  2:315397/46‑1 (MQ=255)

                                                                                                                       tCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCaa                                                                                           >  1:315397/1‑46 (MQ=255)

                                                                                                                       tCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATg                                                    <  2:702135/85‑1 (MQ=255)

                                                                                                                       tCCCCTACCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATg                                                    >  1:702135/1‑85 (MQ=255)

                                                                                                                         ccctacccctgAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAg                                                                                    >  2:1343274/1‑51 (MQ=255)

                                                                                                                         ccctacccctgAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAg                                                                                    <  1:1343274/51‑1 (MQ=255)

TTCCGGTTTCTCTGTCAGCGTAACCTGTGCTTGCCCGCTTAGCGTACTATCATTGGCGGTCAAACTAATTTGGTTAAATGAAAGGCGTTTATGTGACTCCTGCCACTGGGCCTGGAAACTCCCCTGCCCCTGAATACCTTGTTTTGGTAAATCGGCACCCTGCAACTGCCAGTTAATTTGTTCAATAGCCGCCGTTAAATCATGCGGATAATCAGAAGCATCTACCGTACCGTTAAGGGATATCGTGAGATCGC  >  NC_000913/2140770‑2141023

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A