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
A21 F117 I1 R2	26	38.4	896262	90.9%	814702	136.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	584,121	G→T	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	97.6%	124.5 / NA	42	intergenic (+205/‑67)	rplA/rplJ	ribosomal protein L1/ribosomal protein L10
Reads supporting (aligned to +/- strand): ref base G (0/0); major base T (19/22); minor base C (0/1); total (19/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGTAATTTCCAAGTTATATTACTTATTGTGATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCGTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAATTCAGTTT  >  CP000730/583983‑584257

aGTAATTTCCAAGTTATATTACTTATTGTGATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTg                                                                                                                                        >  1:318666/1‑141 (MQ=255)

       tCCAAGTTATATTACTTATTGTGATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGaa                                                                                                                                 <  2:137954/141‑1 (MQ=255)

        ccAAGTTATATTACTTATTGTGATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAACTTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGaaa                                                                                                                                <  2:193095/141‑1 (MQ=255)

              tataTTACTTATTGTGATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCtt                                                                                                                          >  2:199936/1‑141 (MQ=255)

                          tgtgATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTAAAAAAAAAAAAAAAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGAAATTTTTGCCTTGGGTAGAAAGTGCttttttaaaaaaaa                                                                                                              <  2:251441/141‑9 (MQ=255)

                                 attTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTttaaaattaataaaaa                                                                                                       <  1:347903/141‑14 (MQ=255)

                                 attTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTaaaaa                                                                                                       >  1:51909/1‑141 (MQ=255)

                                  ttttACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTaaaaaa                                                                                                      >  2:66977/1‑141 (MQ=255)

                                    ttACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAg                                                                                                    <  2:318666/141‑1 (MQ=255)

                                    ttACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAg                                                                                                    <  1:38377/141‑1 (MQ=255)

                                     tACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTTTTTTTTTTATAAAGTGCTTTTTTTATTAATTTTAAAATAAgt                                                                                                   >  2:173194/1‑140 (MQ=255)

                                       ccaaaGACAATAGGAGAAAACTATAACTTAAAATTTATCCTGCCGATGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGCAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCAc                                                                                                 >  2:13205/4‑141 (MQ=255)

                                         tAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCGCTCGTTGTTGAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCa                                                                                               <  1:437879/141‑1 (MQ=255)

                                         tAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCa                                                                                               <  1:427317/141‑1 (MQ=255)

                                           aGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGTACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCaaa                                                                                             <  1:95937/141‑1 (MQ=255)

                                                 tAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTa                                                                                       >  1:128936/1‑141 (MQ=255)

                                                            tataACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGgtgt                                                                            >  2:137971/1‑141 (MQ=255)

                                                            tataACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGgtgt                                                                            >  2:412301/1‑141 (MQ=255)

                                                             ataACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTc                                                                           <  1:301162/141‑1 (MQ=255)

                                                               aaCTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTg                                                                         <  1:66977/141‑1 (MQ=255)

                                                                aCTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTTTGATCTTTCAAGCACTTCTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTATGa                                                                        <  2:382499/141‑1 (MQ=255)

                                                                    aaaaTTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGt                                                                    <  2:446034/141‑1 (MQ=255)

                                                                       aTTTATCCTGACTAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGATGTGTCTGAATGTCTg                                                                 >  2:427598/1‑141 (MQ=255)

                                                                         ttATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCt                                                               <  1:431562/141‑1 (MQ=255)

                                                                          tATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCGGAATGTCTGCTa                                                              <  2:324778/141‑1 (MQ=255)

                                                                           aTCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTAt                                                             >  2:292148/1‑141 (MQ=255)

                                                                                     ggCTAAAATTGACTGGAAAGTGATGAGCTATGATCTTTCAAGAACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCt                                                   <  2:379995/141‑1 (MQ=255)

                                                                                             ttGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGAAAAAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAaaca                                           <  2:396035/141‑1 (MQ=255)

                                                                                              tGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAaacaa                                          <  1:403126/141‑1 (MQ=255)

                                                                                                         tgatgaTCTATGATCTTTCAAGCACTTTATGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTtgatga                               <  2:341324/141‑1 (MQ=255)

                                                                                                          gatgatCTATGATCTTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGaa                              >  2:392309/1‑141 (MQ=255)

                                                                                                           atgatctatgatctTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGaaa                             <  1:137971/141‑1 (MQ=255)

                                                                                                           atgatctatgatctTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGaaa                             >  1:438164/1‑141 (MQ=255)

                                                                                                               tctatgatctTTCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTTTATGTCTGCTATCATTGACGCTAAAAAACAACTAGTTGATGAAATTgt                         >  2:328635/1‑140 (MQ=255)

                                                                                                                       ctTTCAAGAACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATAATTGAAACTAAAAAACAACTAGTTGATGAAATTGCTGAGGTAc                 <  2:301289/141‑1 (MQ=255)

                                                                                                                          tCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTTTTTTTTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGACATTGCTGAGTTACTAt              >  2:370425/1‑141 (MQ=255)

                                                                                                                          tCAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTAt              >  1:227971/1‑141 (MQ=255)

                                                                                                                           cAAGCACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATc             <  1:409551/141‑1 (MQ=255)

                                                                                                                               cACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAAt         >  1:360534/1‑141 (MQ=255)

                                                                                                                               cACTTTTTGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAAt         <  2:82896/141‑1 (MQ=255)

                                                                                                                                     ttGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAATTCAGtt   >  1:250634/1‑141 (MQ=255)

                                                                                                                                      tGCCTTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAATTCAGttt  >  1:210131/1‑141 (MQ=255)

AGTAATTTCCAAGTTATATTACTTATTGTGATTATTTTACCTAAGACAGTAGGAGTTATTTATAACTTAAAATTTATCCTGCCGAGGCTAAAATTGACTTGAACGTGATGATCTATGATCTTTCAAGCACTTTTTGCCGTGGGTAGAAAGTGCTTTTTTTATTAATTTTAAAAAAAGCACCAAAAATTTAAATGGAGGTGTCTGAATGTCTGCTATCATTGAAGCTAAAAAACAACTAGTTGATGAAATTGCTGAGGTACTATCAAATTCAGTTT  >  CP000730/583983‑584257

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A