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
A17 F70 I0 R1	565	64.8	2371218	98.3%	2330907	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,950,954	Δ1 bp	11.1%	coding (123/567 nt)	yecD →	isochorismatase family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,950,954	0	G	.	11.1%	116.4 / 9.8	36	coding (123/567 nt)	yecD	isochorismatase family protein
Reads supporting (aligned to +/- strand): ref base G (13/19); new base . (2/2); total (15/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01

TTTTGTTTTTTCAGGAGTCATTATGCTTGAACTTAATGCTAAAACCACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATTGGTGG  >  NC_000913/1950810‑1951083

ttttGTTTTTTCAGGAGTCATTATGCTTGAACTTAATGCTAAAACCACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGa                                                                                                                                <  2:249269/149‑1 (MQ=255)

              gAGTCATTATGCTTGAACTTAATGCTAAAACCACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGc                                                                                                                 <  4:322756/149‑1 (MQ=255)

               aGTCATTATGCTTGAACTTAATGCTAAAACCACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCg                                                                                                                <  3:309419/149‑1 (MQ=255)

                   aTTATGCTTGAACTTAATGCTAAAACCACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCa                                                                                                            <  4:4607/149‑1 (MQ=255)

                         cTTGAACTTAATGCTAAAACCACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCgt                                                                                                      >  1:66303/1‑149 (MQ=255)

                                         aaaCCACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGtt                                                                                      <  1:278412/149‑1 (MQ=255)

                                            ccACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGc                                                                                   <  1:406577/149‑1 (MQ=255)

                                            ccACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGc                                                                                   <  4:377302/149‑1 (MQ=255)

                                             cACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGC‑GCGAAATTTcg‑ccgcca                                                                                                                  >  4:422492/1‑111 (MQ=255)

                                             cACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGC‑GCGAAATTTcg‑ccgcca                                                                                                                  <  3:422492/116‑6 (MQ=255)

                                                     tggtggTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGcc                                                                          <  4:350072/149‑1 (MQ=255)

                                                        tggtgATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGAt                                                                       <  1:262805/149‑1 (MQ=255)

                                                          gtgATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTa                                                                     >  1:310135/1‑149 (MQ=255)

                                                             aTCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGc                                                                  >  1:526392/1‑149 (MQ=255)

                                                                 aTTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGaa                                                              <  4:26896/149‑1 (MQ=255)

                                                                      cAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCAtt                                                         <  2:66303/149‑1 (MQ=255)

                                                                         gaagGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTaaa                                                      >  3:346628/1‑149 (MQ=255)

                                                                            ggCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACa                                                   >  2:266917/1‑149 (MQ=255)

                                                                            ggCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACa                                                   >  4:170617/1‑149 (MQ=255)

                                                                                       ttttGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATg                                        >  3:137299/1‑149 (MQ=255)

                                                                                                  gtCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCg                             >  4:246932/1‑149 (MQ=255)

                                                                                                     cacaTACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCt                          >  4:543654/1‑149 (MQ=255)

                                                                                                      acaTACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTa                         >  1:375298/1‑149 (MQ=255)

                                                                                                        aTACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTaaa                       <  3:227208/149‑1 (MQ=255)

                                                                                                                gATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAACTGTTGcc               <  2:321107/149‑1 (MQ=255)

                                                                                                                        aGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAAtt       <  1:266917/149‑1 (MQ=255)

                                                                                                                         gTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATtg      >  4:541029/1‑149 (MQ=255)

                                                                                                                          ttAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATtgg     <  3:170617/149‑1 (MQ=255)

                                                                                                                           tAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATtggt    <  3:301009/149‑1 (MQ=255)

                                                                                                                           tAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATtggt    <  2:526392/149‑1 (MQ=255)

                                                                                                                           tAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATtggt    <  4:299587/149‑1 (MQ=255)

                                                                                                                             aTCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATtggtgg  >  3:96262/1‑149 (MQ=255)

                                                                                                                                         cgCTGGC‑GCGAAATTTCGCCGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAgt                     <  2:216816/117‑1 (MQ=255)

                                                                                                                                         cgCTGGC‑GCGAAATTTCGCCGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAgt                     >  1:216816/2‑118 (MQ=255)

                                                                                                                                         aGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATtggt    <  2:583329/135‑1 (MQ=255)

                                                                                                                                         aGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATtggt    >  1:583329/1‑135 (MQ=255)

TTTTGTTTTTTCAGGAGTCATTATGCTTGAACTTAATGCTAAAACCACTGCGCTGGTGGTGATCGATTTACAAGAAGGCATCTTACCTTTTGCCGGTGGTCCACATACTGCCGATGAGGTAGTTAATCGCGCCGGGAAGCTGGCGGCGAAATTTCG‑CGCCAGCGGTCAGCCCGTGTTTCTGGTGCGCGTTGGCTGGTCTGCCGATTACGCTGAAGCATTAAAACAGCCGGTCGATGCGCCCTCACCGGCTAAAGTGTTGCCCGAAAATTGGTGG  >  NC_000913/1950810‑1951083

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A