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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,438,548	T→C	V200A (GTG→GCG)	flk →	putative flagella assembly protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,438,548	0	T	C	100.0%	162.0 / NA	46	V200A (GTG→GCG)	flk	putative flagella assembly protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (25/21); total (25/21)

CGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGTGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAACCTTTAGATG  >  NC_000913/2438420‑2438682

cgAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCGGGAACTTTCCGGGGCGAAAGATGGc                                                                                                                              >  1:412843/1‑139 (MQ=255)

                           ggcggAGAACAATGCGCTAAAACAACTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAAc                                                                                                   >  2:984634/1‑139 (MQ=255)

                            gcggAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAAcc                                                                                                  >  2:127941/1‑139 (MQ=255)

                            gcggAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAAcc                                                                                                  >  2:685198/1‑139 (MQ=255)

                                      aTGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAc                                                                                        <  1:685198/139‑1 (MQ=255)

                                       tGCGCTAAAACAGCTGGTGACCAAACTTACGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGATGAcc                                                                                       >  2:998672/1‑139 (MQ=255)

                                          gcTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGtt                                                                                                       >  1:572368/1‑120 (MQ=255)

                                          gcTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGtt                                                                                                       <  2:572368/120‑1 (MQ=255)

                                          gcTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTgg                                                                                    >  2:372280/1‑139 (MQ=255)

                                                      ggTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAc                                                                                        >  2:546849/1‑123 (MQ=255)

                                                      ggTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAc                                                                                        <  1:546849/123‑1 (MQ=255)

                                                      ggTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGt                                                                        >  1:55217/1‑139 (MQ=255)

                                                        tGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCa                                                                      >  1:1279364/1‑139 (MQ=255)

                                                          aCCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGa                                                                    >  1:1501953/1‑139 (MQ=255)

                                                              aaCTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATgg                                                                                                                               <  2:1318187/76‑1 (MQ=255)

                                                              aaCTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATgg                                                                                                                               >  2:1492147/1‑76 (MQ=255)

                                                              aaCTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATgg                                                                                                                               <  1:1492147/76‑1 (MQ=255)

                                                              aaCTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATgg                                                                                                                               >  1:1318187/1‑76 (MQ=255)

                                                                    cggcggCAACGGGGAAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAg                                                                                                                           >  1:1395630/1‑74 (MQ=255)

                                                                    cggcggCAACGGGGAAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAg                                                                                                                           <  2:1395630/74‑1 (MQ=255)

                                                                       cggcAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCa                                                       <  2:262444/139‑1 (MQ=255)

                                                                                      ccAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCt                                        <  1:984634/139‑1 (MQ=255)

                                                                                        aGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTgg                                      <  1:127941/139‑1 (MQ=255)

                                                                                         gCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGcc                                              >  1:1270365/1‑130 (MQ=255)

                                                                                         gCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGcc                                              <  2:1270365/130‑1 (MQ=255)

                                                                                         gCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGa                                     <  2:1364322/139‑1 (MQ=255)

                                                                                         gCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGa                                     >  2:1458935/1‑139 (MQ=255)

                                                                                          cAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGaa                                    >  1:1380536/1‑139 (MQ=255)

                                                                                          cAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGaa                                    >  1:388247/1‑139 (MQ=255)

                                                                                                gATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTa                              >  1:463227/1‑139 (MQ=255)

                                                                                                     ggCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGAt                         <  1:998672/139‑1 (MQ=255)

                                                                                                     ggCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGAt                         <  2:55217/139‑1 (MQ=255)

                                                                                                     ggCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGAt                         <  1:427728/139‑1 (MQ=255)

                                                                                                     ggCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGAt                         <  2:1501953/139‑1 (MQ=255)

                                                                                                       cAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAGCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGa                       >  1:1126454/1‑139 (MQ=255)

                                                                                                        aaTCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACg                                          >  1:581941/1‑119 (MQ=255)

                                                                                                        aaTCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACg                                          <  2:581941/119‑1 (MQ=255)

                                                                                                          tCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCAAAACTGTTTAACAATCTGGTGACCTGGCTACAGGCGCGCCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGAGGc                    >  2:1292590/1‑139 (MQ=255)

                                                                                                           cGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCt                   >  2:1347698/1‑139 (MQ=255)

                                                                                                                 tGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAaaca             <  2:412843/139‑1 (MQ=255)

                                                                                                                     aCTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAAc                                                                                                   >  2:275321/1‑49 (MQ=255)

                                                                                                                     aCTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAAc                                                                                                   <  1:275321/49‑1 (MQ=255)

                                                                                                                      cTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACg                                          <  2:1347510/105‑1 (MQ=255)

                                                                                                                      cTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACg                                          >  1:1347510/1‑105 (MQ=255)

                                                                                                                            ggggCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAACCTTTAGATg  <  2:1126454/139‑1 (MQ=255)

                                                                                                                             gggCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAAcc                                                                                                  <  1:494097/42‑1 (MQ=255)

CGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGTGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAACCTTTAGATG  >  NC_000913/2438420‑2438682

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A