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
A6 F1 I2 R1	758	59.3	2864096	93.9%	2689386	105.7

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%	125.8 / NA	35	V200A (GTG→GCG)	flk	putative flagella assembly protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (15/20); total (15/20)

CAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGTGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAACCTTTAGA  >  NC_000913/2438415‑2438680

cagcGCGAGGCGACCGACCCTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGAGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAg                                                                                                                                 <  2:934815/139‑1 (MQ=255)

     cgAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGc                                                                                                                            >  1:1309693/1‑139 (MQ=255)

     cgAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGc                                                                                                                            <  1:64495/139‑1 (MQ=255)

        ggCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAg                                                                                                                         >  2:715480/1‑139 (MQ=255)

                     ccTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGa                                                                                                            <  2:1156233/139‑1 (MQ=255)

                            taCCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGtt                                                                                                     >  2:1302178/1‑139 (MQ=255)

                                 gcggAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAAcc                                                                                                <  1:268548/139‑1 (MQ=255)

                                  cggAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCa                                                                                               <  1:715480/139‑1 (MQ=255)

                                           aTGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGAc                                                                                      <  1:1302178/139‑1 (MQ=255)

                                                          tGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAg                                                                                                                                 <  1:1312801/81‑1 (MQ=255)

                                                          tGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAg                                                                                                                                 >  2:1312801/1‑81 (MQ=255)

                                                             tGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCa                                                                    <  1:1215346/139‑1 (MQ=255)

                                                              gACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAg                                                                   >  2:626718/1‑139 (MQ=255)

                                                                              gcAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCaaa                                                   >  1:1381286/1‑139 (MQ=255)

                                                                                             aGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTgg                                    >  2:651800/1‑139 (MQ=255)

                                                                                             aGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTgg                                    >  2:477893/1‑139 (MQ=255)

                                                                                                          ggCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGAt                       <  2:1381286/139‑1 (MQ=255)

                                                                                                          ggCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGAt                       <  1:399888/139‑1 (MQ=255)

                                                                                                           gCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAAt                                 <  2:500832/128‑1 (MQ=255)

                                                                                                           gCAATCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAAt                                 >  1:500832/1‑128 (MQ=255)

                                                                                                              aTCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACg                   <  1:624380/139‑1 (MQ=255)

                                                                                                               tCGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGc                  >  2:775597/1‑139 (MQ=255)

                                                                                                                cGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTaa                                                                                                                     >  1:75694/1‑39 (MQ=38)

                                                                                                                cGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTaa                                                                                                                     <  2:75694/39‑1 (MQ=38)

                                                                                                                cGATGCTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCt                 >  2:1075742/1‑139 (MQ=255)

                                                                                                                     cTGGAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAaac            <  1:775597/139‑1 (MQ=255)

                                                                                                                        gAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAAt                                 <  1:726357/115‑1 (MQ=255)

                                                                                                                        gAACTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAAt                                 >  2:726357/1‑115 (MQ=255)

                                                                                                                          aCTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGa                                                                                                            <  1:846252/38‑1 (MQ=255)

                                                                                                                          aCTTTCCGGGGCGAAAGATGGCGAGTTAATTCCAGCGa                                                                                                            >  2:846252/1‑38 (MQ=255)

                                                                                                                               ccGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGcc                                            >  1:357568/1‑97 (MQ=255)

                                                                                                                               ccGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGcc                                            <  2:357568/97‑1 (MQ=255)

                                                                                                                               ccGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAACCTTTAGa  <  2:649379/139‑1 (MQ=255)

                                                                                                                               ccGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAACCTTTAGa  <  2:1309693/139‑1 (MQ=255)

                                                                                                                               ccGGGGCGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAACCTTTAGa  <  1:626718/139‑1 (MQ=255)

CAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAACAGCTGGTGACCAAACTTGCGGCGGCAACGGGGGAACCCAGCAAACAGATCTGGCAATCGATGCTGGAACTTTCCGGGGTGAAAGATGGCGAGTTAATTCCAGCGAAACTGTTTAACCATCTGGTGACCTGGCTACAGGCGCGTCAGACGCTAAGCCAGCAAAATACGCCGACGCTGGAATCACTACAGATGACGCTAAAACAACCTTTAGA  >  NC_000913/2438415‑2438680

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A