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	1,204,160	G→A	113 (TAG→TAA)	ymfM →	e14 prophage, uncharacterized protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,204,160	0	G	A	100.0%	135.2 / NA	42	113 (TAG→TAA)	ymfM	e14 prophage, uncharacterized protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/21); total (21/21)

AAAGATCACTACGGAGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGT  >  NC_000913/1204025‑1204284

aaaGATCACTACGGAGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAgg                                                                                                                           <  2:834567/139‑1 (MQ=255)

 aaGATCACTACGGAGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAggt                                                                                                                          <  1:1431930/139‑1 (MQ=255)

       aCTACGGAGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCa                                                                                                                    >  1:476440/1‑139 (MQ=255)

       aCTACGGAGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCa                                                                                                                    >  2:860032/1‑139 (MQ=255)

          aCGGAGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAggt                                                                                                                          >  2:17746/1‑130 (MQ=255)

          aCGGAGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAggt                                                                                                                          <  1:17746/130‑1 (MQ=255)

            ggAGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGc                                                                                                               <  1:190029/139‑1 (MQ=255)

              aGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCAc                                                                                                             >  1:1183100/1‑139 (MQ=255)

              aGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGCTCGGTCATGAGAAc                                                                                                             >  2:1214096/1‑139 (MQ=255)

                      tCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTaa                                                                                                     <  2:847984/139‑1 (MQ=255)

                            tCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCt                                                                                               <  2:1448745/139‑1 (MQ=255)

                                          ccGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCCCTAAATTAACCGGCTATGTATGGGATGGt                                                                                 <  1:860032/139‑1 (MQ=255)

                                              aaaCACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTgcg                                                                             <  1:1477098/139‑1 (MQ=255)

                                              aaaCACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTgca                                                                             <  2:1379740/139‑2 (MQ=255)

                                                    aaCGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCAt                                                                       <  1:1189140/139‑1 (MQ=255)

                                                    aaCGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCAt                                                                       >  1:312945/1‑139 (MQ=255)

                                                         gTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAggt                                                                                                                          <  2:1075660/83‑1 (MQ=255)

                                                         gTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAggt                                                                                                                          >  1:1075660/1‑83 (MQ=255)

                                                          ttATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCATCCCGCTCGAACAGTTTCGTCGTAAATCCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCa                                                                 <  2:892719/139‑1 (MQ=255)

                                                                  cTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTa                                                         >  2:75968/1‑139 (MQ=255)

                                                                   tCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTAt                                                        <  2:1039022/139‑1 (MQ=255)

                                                                       cgAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAg                                                    >  2:155801/1‑139 (MQ=255)

                                                                       cgAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGAATGGTTGCGCTGCATCAGGCATGAAGTTATCCAg                                                    >  1:1097091/1‑139 (MQ=255)

                                                                          aGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGt                                                 >  2:301811/1‑139 (MQ=255)

                                                                                      tGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGc                                                                                                >  2:1343090/1‑80 (MQ=255)

                                                                                      tGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGc                                                                                                <  1:1343090/80‑1 (MQ=255)

                                                                                      tGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATgg                                                                                       >  1:393291/1‑89 (MQ=255)

                                                                                      tGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATgg                                                                                       <  2:393291/89‑1 (MQ=255)

                                                                                                aGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCt                           <  1:301811/139‑1 (MQ=255)

                                                                                                  cccGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAAc                                                                                                    <  1:1321687/64‑1 (MQ=255)

                                                                                                  cccGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAAc                                                                                                    >  2:1321687/1‑64 (MQ=255)

                                                                                                      cTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTc                     >  1:1282439/1‑139 (MQ=255)

                                                                                                      cTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTc                     >  2:30423/1‑139 (MQ=255)

                                                                                                      cTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTc                     >  2:469416/1‑139 (MQ=255)

                                                                                                      cTCGAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTc                     >  1:501151/1‑139 (MQ=255)

                                                                                                         gAACAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTCAGt                  <  2:773491/139‑1 (MQ=255)

                                                                                                           aCAGTTTCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTCAGTaa                <  1:469416/139‑1 (MQ=255)

                                                                                                               tttCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTgcg                                                                             >  2:1076088/1‑74 (MQ=255)

                                                                                                               tttCGTCGTAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTgcg                                                                             <  1:1076088/74‑1 (MQ=255)

                                                                                                                    tcgtAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAgg       >  1:1444197/1‑139 (MQ=255)

                                                                                                                     cgtAAATTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGgt      <  1:75968/139‑1 (MQ=255)

                                                                                                                         aaTTCAGGGAAATAAAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGgtgtgt  >  1:1015906/1‑139 (MQ=255)

AAAGATCACTACGGAGTGCCCGTCAGAGTCATTCGTTGGGAGCCGGAAACACAACGGGTTATCTACCTCCGCGAAGGTTATGAGCATGAATGCTTCAGCCCGCTCGAACAGTTTCGTCGTAAATTCAGGGAAATAGAGGTCGGTCATGAGCACTAAATTAACCGGCTATGTATGGGATGGTTGCGCTGCATCAGGCATGAAGTTATCCAGCGTGGCAATTATGGCCCGCCTGGCTGATTTCAGTAATGACGAAGGTGTGT  >  NC_000913/1204025‑1204284

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