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
A19 F57 I0 R1	85	36.1	800162	93.0%	744150	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	584,121	G→T	100%	intergenic (+205/‑67)	rplA → / → rplJ	ribosomal protein L1/ribosomal protein L10

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	584,121	0	G	T	100.0%	101.7 / ‑6.5	36	intergenic (+205/‑67)	rplA/rplJ	ribosomal protein L1/ribosomal protein L10
Reads supporting (aligned to +/- strand): ref base G (0/0); major base T (19/16); minor base A (1/0); total (20/16)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GTTATATTACTTATTGTGATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCGTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAATTCAGTTTC  >  CP000730/583995‑584258

gTTATATTACTTGTTGTGATTTTTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGc                                                                                                                             >  1:206862/1‑141 (MQ=255)

               gtgATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATATATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTATTTCAttt                                                                                                              >  2:273269/1‑141 (MQ=255)

                 tattatgGTACTTAAGCCAGTTGGGGTTATTTATAATTGAAAATTTATCCTGGCGATTCTAAAGTTGACTTGATCGTGATGATCTATGATCTTTCAATCACTGTGTGCCTTTTGTAGAAAGTGCTTTTTTTATTAATTTTa                                                                                                            <  1:278494/140‑1 (MQ=255)

                 gATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTAATTAATTTTa                                                                                                            >  2:71296/1‑141 (MQ=255)

                  attattTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTaa                                                                                                           >  2:142803/1‑141 (MQ=255)

                    tattTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTaaaa                                                                                                         <  2:378136/141‑1 (MQ=255)

                                    gTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAAttt                                                                                         >  1:114168/1‑141 (MQ=255)

                                    gTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGGGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAAttt                                                                                         <  2:89162/141‑1 (MQ=255)

                                       ggAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTaaa                                                                                      >  2:245501/1‑141 (MQ=255)

                                       ggAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTaaa                                                                                      >  2:357361/1‑141 (MQ=255)

                                        gAGTTATTTATAACTTAAAATTTATTCTGCCGAGGCTAAAATTGACTTGAACGTGGTGCTCTATGATGTTGCAAGCACTTTTTGCGTTGGGTATAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAAt                                                                                     <  2:133749/141‑1 (MQ=255)

                                        gAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAAt                                                                                     <  1:1799/141‑1 (MQ=255)

                                        gAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCAATTTTTGCCTTGGGGAGAAATTGCTTTTTTTATTATTTTTAAAAAAAGCACCAAAAATTTAAAt                                                                                     >  2:83686/1‑141 (MQ=255)

                                          gTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCTTTTGGTAGAAAGTGCTTTTTTTATTAATTTTAACGAAAGCACTAAAAATTTAAATgg                                                                                   >  2:351583/1‑141 (MQ=255)

                                            tatttatAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCAACAAAAATTTAAATGGAg                                                                                 >  1:351766/1‑141 (MQ=255)

                                                         aaaTTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAGTGTc                                                                    >  1:131579/1‑141 (MQ=255)

                                                         aaaTTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTc                                                                    >  1:124501/1‑141 (MQ=255)

                                                           aTTTATCCTGCCGATGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCATTGGGTAGAGAGTGCTTTTTTTATTAATTTTAAAAAACGCACCAAAAATTTAAATGTAGGTGTCTGAATGTCTg                                                                  <  2:137410/141‑1 (MQ=255)

                                                               aTCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTAt                                                              <  1:388943/141‑1 (MQ=255)

                                                                       gagatgaaaaTCGACTTGAAAGTGATAATCTATGATCTTTAAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTAAAAAAAAAAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAg                                                      <  2:55002/135‑1 (MQ=255)

                                                                              caagtGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTATGCTATCATTGCAGCTacaaa                                               >  2:201540/5‑141 (MQ=255)

                                                                              aaaTTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTaaaaa                                               >  1:69822/1‑141 (MQ=255)

                                                                                aTTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAaac                                             <  1:83686/141‑1 (MQ=255)

                                                                                            gTGATGATCTATGATCTTTCAAGCACTTTTTGCCATGGGTAGAAAGTGCTTTTTTGATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTAACATTGAAGCTAAAAAACAACTAGTtgatg                                 >  1:191980/1‑141 (MQ=255)

                                                                                             tgatgaTCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTtgatga                                <  2:206862/141‑1 (MQ=255)

                                                                                              gatgatCTATTATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTTAAGCTAAAAAACAACTAGTTGATGaa                               <  1:247394/141‑1 (MQ=255)

                                                                                                  atctatgatctTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTg                           <  2:342664/141‑1 (MQ=255)

                                                                                                   tctatgatctTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGc                          >  2:72030/1‑141 (MQ=255)

                                                                                                         ttctTTCAAGCACTTTTTGCCTTGGTTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGt                    <  1:157254/140‑1 (MQ=255)

                                                                                                               cAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATc              <  1:357361/141‑1 (MQ=255)

                                                                                                               cAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGCCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATc              <  1:245501/141‑1 (MQ=255)

                                                                                                                 aGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAGTGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCaa            >  2:286120/1‑141 (MQ=255)

                                                                                                                      tttttGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAATTCa       >  1:285995/1‑141 (MQ=255)

                                                                                                                      tttttGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAATTCa       >  1:308567/1‑141 (MQ=255)

                                                                                                                        tttGCCTTGGGTAGAAAGTGCTTTTTTTATTCCTTCTACAAACAGTAGCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAATTCAGt     <  1:307673/141‑1 (MQ=255)

                                                                                                                           gCCTTGGGTAGACAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAGAAATTTAAATGTAGGTGTCTGCATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCCAATTCAGttta  >  1:75965/1‑140 (MQ=255)

GTTATATTACTTATTGTGATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCGTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAATTCAGTTTC  >  CP000730/583995‑584258

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A