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 F110 I1 R1	18	47.7	1781824	90.5%	1612550	142.4

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	97.6%	120.7 / NA	41	P1100Q (CCG→CAG)	rpoB	RNA polymerase, beta subunit
Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (26/14); minor base G (0/1); total (26/15)
Fisher's exact test for biased strand distribution p-value = 3.66e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATCC  >  NC_000913/4184411‑4184680

ttAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTa                                                                                                                                 >  2:120481/1‑143 (MQ=255)

    aCGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGt                                                                                                                             <  2:152319/143‑1 (MQ=255)

      gCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACACCGGACTGAACCAGCTGGGCGGACCGtct                                                                                                                           >  1:887346/1‑143 (MQ=255)

      gCCGTATCCAGCCTGGTGACAAGATAGCAGGTCGACACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGACGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGACGGGCCGACCGtct                                                                                                                           >  2:233656/1‑143 (MQ=255)

         gTATCCAGCCTGTTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGt                                                                                                                        <  1:402456/143‑1 (MQ=255)

              cAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTCTGaa                                                                                                                   >  1:443022/1‑143 (MQ=255)

              cAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATAGGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGaa                                                                                                                   >  1:758032/1‑143 (MQ=255)

                 ccTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACAt                                                                                                                >  1:490162/1‑143 (MQ=255)

                   tGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCg                                                                                                              <  2:372409/143‑1 (MQ=255)

                   tGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCg                                                                                                              >  1:68147/1‑143 (MQ=255)

                   tGGCGACAACAGGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCg                                                                                                              <  2:279162/143‑1 (MQ=255)

                   gttttaCAAGATGGCAGGTCGTTACGGTAACAGGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGGTGAAAACGGTACGCCGGTAGACTTCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCg                                                                                                              <  2:282938/138‑1 (MQ=255)

                           acagggCACGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCTTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATc                                                                                                      <  1:539239/139‑1 (MQ=255)

                                        tcACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCAcc                                                                                         >  1:278553/1‑143 (MQ=255)

                                            ggTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTggg                                                                                     >  1:565875/1‑143 (MQ=255)

                                                 cgaGGGTGGAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATgg                                                                                <  1:856298/141‑1 (MQ=255)

                                                 cAAGGGCGTCATTGCTAAGAGCAGCCCGGTCGAAGATATGCCGGACGATGGAAACGGTACGCCGGTAGACATCGTACTGAACCATCTGGGCGTACCGTCTCGTATGAGCATCGGTCAGAGCCTCGAAACCCACCTGGGTATgg                                                                                <  2:792476/143‑1 (MQ=255)

                                                      gtgtAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCCCCTGGGTATGGCTGCg                                                                           >  2:14297/1‑143 (MQ=255)

                                                       tgtAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTCCTGAACCAGCTGGGCGTACCGTCCCGTATGAACATCGGTCAGATCCTCGAAACCCACCGGGGCATGGCTGCGa                                                                          >  1:305909/1‑143 (MQ=255)

                                                        gtAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGaa                                                                         >  1:561196/1‑143 (MQ=255)

                                                         tAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGgaa                                                                        >  1:803521/1‑143 (MQ=255)

                                                                tAAGATCAACCCGATCGAAGATATGCCTTACGACGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCGGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCg                                                                 <  1:120481/143‑1 (MQ=255)

                                                                ggagagCAGCCCGATCGATTAGCTGCCGCACGTTGAGAACGCTACGCCGGTAGACATCGTACTGATCCAGCTGGGCGTACCGGCTCGTATGAAGATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCg                                                                 <  2:792203/141‑1 (MQ=255)

                                                                  aGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATACTCGACACCCAACTGGGGACAGCGGGGAAAGGTacaggc                                                               >  2:780454/1‑138 (MQ=255)

                                                                       aaCCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGAGCGTACCGTCTCGTGTGAACATCCGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGCAAGGTATCTGCGACaa                                                          >  1:124596/1‑143 (MQ=255)

                                                                            gATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCa                                                     <  1:353662/143‑1 (MQ=255)

                                                                              tCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAAc                                                   <  2:763230/143‑1 (MQ=255)

                                                                                  cggtgggCCTTGCGATGAAACCGGTACGCGGGTCGACATGGTACTGAACCGGCTGGGCGTACCGTCTCGTATGAACAGCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCa                                               <  2:25358/137‑1 (MQ=255)

                                                                                          ctgaCGGTGAAAGCGGTACGCCGGTAGGCGTCGTACTGAACGAGCTGGGCGTATCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGaaa                                       <  2:216823/140‑1 (MQ=255)

                                                                                           ttACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAc                                      >  2:324194/1‑143 (MQ=255)

                                                                                           ttACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAc                                      >  2:696688/1‑143 (MQ=255)

                                                                                           ttACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAc                                      >  1:859195/1‑143 (MQ=255)

                                                                                           ttACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCCCGAAACCCACCTGGGTATGGCTCCGAAAGGTATCAACGACAAGATCAAAGCCAAGCTGAAAc                                      >  1:149460/1‑143 (MQ=255)

                                                                                                  gAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAgcagca                               >  1:701730/1‑143 (MQ=255)

                                                                                                    aaaCGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGGAAGGGATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCaag                             >  1:49955/1‑143 (MQ=255)

                                                                                                        ggTACGCCGGTAGACATCGTACTGAACCAGCAGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCAGGGTATGGCTGCGAAAGGTATCGGCGACAAGAACAACGCCATGCGGAAACAGCAGCaagaaaa                         >  2:37918/1‑141 (MQ=255)

                                                                                                            cGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGACTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCCGCGAAAGGGATCGGCGACCAGGTCAGCGCCATGCGGAAACAGCAGCAAGGAGGcgcg                     >  2:119690/1‑143 (MQ=255)

                                                                                                             gCCGGTAGACATCGTACTGAAACAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCCTGCTGACACAGCagaaagaaacagcga                    >  2:136027/1‑136 (MQ=255)

                                                                                                                        tCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGACAACAACCTGTGTATGGCTGCGAAAGGTATCCGCGACAAGACCAACGCCCTGCTGAAACAGCAGCCAGAAGTCGCGACACTCCGCGac         >  2:821418/1‑142 (MQ=255)

                                                                                                                        tCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGaa         <  1:562982/143‑1 (MQ=255)

                                                                                                                               gAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATcc  >  1:386805/1‑143 (MQ=255)

TTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATCC  >  NC_000913/4184411‑4184680

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