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
A23 F184 I2 R1	13	42.0	1528396	89.7%	1370971	142.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,184,543	C→A	P1100Q (CCG→CAG)	rpoB →	RNA polymerase, beta subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,184,543	0	C	A	97.8%	121.1 / NA	46	P1100Q (CCG→CAG)	rpoB	RNA polymerase, beta subunit
Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (24/20); minor base G (0/1); total (24/22)
Fisher's exact test for biased strand distribution p-value = 4.67e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATCC  >  NC_000913/4184406‑4184680

ggCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTgg                                                                                                                                      <  1:373944/143‑1 (MQ=255)

ggCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGGCGTCACGGTAAAAAGGGTGTAATTTCTAAGATCAACACGATCGAAGGTAAGGCTGAAGATGAAGACGGGACGACGGGAGACATCGTACTGAACGAGCTgg                                                                                                                                      >  2:254687/1‑143 (MQ=255)

     ttAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTa                                                                                                                                 <  1:606638/143‑1 (MQ=255)

       aaaCGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAACCGGTACGCCGGCAGACATCGTACTGAACCAGCTGGGCGTAcc                                                                                                                               >  2:224880/1‑143 (MQ=255)

       aaaCGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTAcc                                                                                                                               <  1:415745/143‑1 (MQ=255)

               tATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGAACCGTCTCGTa                                                                                                                       >  2:209198/1‑143 (MQ=255)

                aTCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGCACCAGCTGGGCGTACCGTCTCGTAt                                                                                                                      >  2:2137/1‑143 (MQ=255)

                   cAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGaa                                                                                                                   <  2:106404/143‑1 (MQ=255)

                        tGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGCAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCg                                                                                                              <  1:27043/143‑1 (MQ=255)

                           tGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGCTTAAACCGGGCGAAGATGTGAATGAGAAAGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGGCTCGTATGAACATCgggc                                                                                                           >  1:352270/1‑141 (MQ=255)

                                   tGGCAGGTCGTCACGGTAACAAGGGTGTAATTTGTAAGCTCAACGCGATCGAAGATATGCCTTACGATGAAAGCGGTACGCCGGTAGACATCGTACTGAACCAGCTGCGCGTACCGTCTCGTATGAACATCGGTCAGATCCTc                                                                                                   <  2:544161/143‑1 (MQ=255)

                                    ggCAGGTCGTCACTGTAACAAGGTTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCg                                                                                                  <  1:163570/143‑1 (MQ=255)

                                    ggCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACTAGTTGGGAGGGCCACCACCTATGCACATCGGTCAGATCCTca                                                                                                  >  1:138600/1‑142 (MQ=255)

                                    ggCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACACCGGTCAGCTCCTCg                                                                                                  >  1:651024/1‑143 (MQ=255)

                                       aGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGaaa                                                                                               <  1:205805/143‑1 (MQ=255)

                                       aGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGGAAGCCGGTAGACAGCGTACTGAACCAGCTGGGCGAACCGTCGCGCAATAACCTCGGCCCAATCCTGGaaa                                                                                               >  2:84921/1‑143 (MQ=255)

                                                cGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTgg                                                                                      >  1:82194/1‑143 (MQ=255)

                                                   gaacggtggTGGAATTTCTAAGAGCGACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTCGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTa                                                                                   <  2:637157/136‑1 (MQ=255)

                                                         gggTGTAAGTGCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAACCGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTg                                                                             <  1:11956/143‑1 (MQ=255)

                                                          ggTGTAATTTCTAAGATCAACCCTATCGAAGATATGCCTGACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCATATCCTCGATACCCACCTGGGTATGGCTGc                                                                            <  2:100962/143‑1 (MQ=255)

                                                              tAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCCCGTATGAACATCGGTCAGCTCCCGGGAACACAACCGGGGAAGGCTGCGaaa                                                                        >  2:153787/1‑143 (MQ=255)

                                                              tAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACAGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAAAATCGGTAAGATCCTCGAAACCCACCTGGGTATGGCTGCGaaa                                                                        >  1:329263/1‑143 (MQ=255)

                                                               aaTTTCTAAGGTCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAg                                                                       <  2:713493/143‑1 (MQ=255)

                                                                     tAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCg                                                                 >  1:374839/1‑143 (MQ=255)

                                                                     tAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGCCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTGTCg                                                                 >  2:409902/1‑143 (MQ=255)

                                                                         aTCAACCCGATCGAAGAGAGGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGa                                                             <  1:98477/143‑1 (MQ=255)

                                                                            gaCCCGATTGAAGATATGCCTTTGGATGAAATCGGTACGTCGGTAGACATCGTACTGAACCAGCTGGGCTTACCGGCGCGTATGAACATCGGTCAGATCCTCGAAACCTACCTGGGTATGGCTGCGAAAGGTATCGGCGACaa                                                          <  2:618114/142‑1 (MQ=255)

                                                                             aCCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAACTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTAGGGCTGCGAAAGGTAtcgtcggcgcg                                                         >  1:125429/1‑138 (MQ=255)

                                                                              cccGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTAGGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACCAGa                                                        >  1:382643/1‑143 (MQ=255)

                                                                               ccGGTCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACACGAt                                                       >  2:133028/1‑143 (MQ=255)

                                                                                cGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGCTc                                                      >  1:421482/1‑143 (MQ=255)

                                                                                      aaGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACATGATCAACGcc                                                >  2:200661/1‑143 (MQ=255)

                                                                                         acatGCCCTACGATGAAAACGGTACGCCGGTAGACATCGGACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCCCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATg                                             <  1:694154/141‑1 (MQ=255)

                                                                                                    gATGAAGGCGGTACGCGGGTAGGCATCGTACTGAACCTGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcagca                                  <  2:38153/143‑1 (MQ=255)

                                                                                                     aTGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcagcag                                 >  1:619935/1‑143 (MQ=255)

                                                                                                        agcaCGGTACGCCGGTAGACATCGTACTGACCCATCTGGGCGAAACGCGACAATGGAGCATCGATCATAACCTCGACACCCACCCGGGTATGGCTGCGAACGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCaa                              <  2:159843/140‑1 (MQ=255)

                                                                                                        aaaaCGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTCTCGGCGACAAGATCCACGCCATGCTGAAACAGCAGCaa                              >  1:221186/1‑143 (MQ=255)

                                                                                                           aCGGTACGCCGGTAGACATCGTACGGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCaagaa                           <  1:209198/143‑1 (MQ=255)

                                                                                                               tACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTcg                       <  2:648386/143‑1 (MQ=255)

                                                                                                               tACGCCGGCAGACATCGTACTGAACCAGCTGGCCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGGGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTcg                       <  2:708591/143‑1 (MQ=255)

                                                                                                                    cGGTAGACATCGGACTGAACCAGCTGGGCGTACCGTCTCGTATGAAAATCGGGCAGATCCTCGCAACCCACCTGGGCATGGCTGCGACAGGTCCCGGCGACACGCCCAACCCCCTGCACCCACAGCAGCACGAAGTcgacaca                  >  2:620749/1‑138 (MQ=255)

                                                                                                                         gACATCGTACTGAACCAGCTGGGCGTACCGTCTCGCATGAACAGAGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGAATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAACAAGTCGCGAAACTgcg             >  2:344938/1‑143 (MQ=255)

                                                                                                                            aTCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGGAGTCGCGAAACTGCGCGa          >  1:321523/1‑143 (MQ=255)

                                                                                                                              cGTACTGAACCGGCTGGGCGTACCGGCTCGTATGAACAGCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAAt        <  1:329990/143‑1 (MQ=255)

                                                                                                                                  cTGAACCAGCTGGGCGTACCGTCACGTAGGAACAGCGGTCAGCTCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCAt    <  1:104166/143‑1 (MQ=255)

                                                                                                                                    gAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATcc  >  1:43371/1‑143 (MQ=255)

GGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATCC  >  NC_000913/4184406‑4184680

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A