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
A16 F28 I0 R1	2812	90.9	3266724	96.2%	3142588	148.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,708,973	T→C	12.9%	A685A (GCT→GCC)	rsxC →	SoxR [2Fe‑2S] reducing system protein RsxC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,708,973	0	T	C	12.9%	89.3 / 4.2	43	A685A (GCT→GCC)	rsxC	SoxR [2Fe‑2S] reducing system protein RsxC
Reads supporting (aligned to +/- strand): ref base T (27/8); new base C (2/3); total (32/11)
Fisher's exact test for biased strand distribution p-value = 1.17e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCAACAGGCTAATGCCGAGCCAGAACAACAGGTCGATCCGCGCAAAGCCGCCGTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCCGCGCTCAGGCCAAAAAAGCCGCCCAGC  >  NC_000913/1708829‑1709118

gCAACAGGCTAATGCCGAGCCAGAACAACAGGTCGATCCGCGCAAAGCCGCCGTCGAAGCCGCTATTGCCCGCGCCAAAGCGCGCAAACGGGACCAGCAACCGGCTAATGAGGAGCCAGAAGACCACGTAGATCAGCGCAAAGCTGcaga                                                                                                                                              >  1:1613339/1‑147 (MQ=14)

               cGAGCCAGAACAACAGGTCGATCCGCGCAAAGCCGCCGTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGc                                                                                                                               >  1:1379197/1‑150 (MQ=14)

                  gCCAGAACAACAGGTCGATCCGCGCAAAGCCGCCGTAGACGCCGCTATTGCCCGCGCCAACGCCCGCAAACCGGAACAGCACCCGGCTAATGCGGAGCCAGAAGAACAGGTAGAACAGCGAAACGCAGCAGTAGAAGCGGCTATAGCAcg                                                                                                                            >  1:298261/1‑150 (MQ=14)

                   ccAGAACACCAGGCCGATCCTCGCAAAGCCGCCGTCGAAGCAGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACAGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCAcgc                                                                                                                           <  1:2031/150‑1 (MQ=14)

                         caacaGGTCGATCCGCGCAAAGCCGCCGTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCaaa                                                                                                                     >  2:594923/1‑150 (MQ=255)

                                  gATCCGCGCAAAGCCGCCGTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGTTCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCAAAAGCACGAAAg                                                                                                            >  2:966717/1‑150 (MQ=255)

                                      cgcgCAAAGCCGCCGTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCAGTGGACGCGGGGAATGCACGCGGCAACGCCCGCAAGCTgg                                                                                                        >  2:410957/1‑150 (MQ=17)

                                       ccgcAACCCCGCCGGCCACGCCGCCCATGCCCGAGCCAAAGCTCGCAAACTGGAACAGCAACAGGCTAATGCGGAGCCAGAATAACAGGTTGATCCGCGCAAAGCTTCCGTCGAAGCGGCTTTTGCACGCGCCAAAGCACGCAAGCTGGa                                                                                                       <  2:1475537/149‑1 (MQ=14)

                                               ccgccgTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAACCAGAAGAACAGGTTGAACACCGCAAAGCTGACGTAGAAGAGGCTATTGCAAGAGCCAAAGCACGCAAGCTGGAACAGaaaa                                                                                               >  2:220602/1‑149 (MQ=14)

                                                cgccgTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCg                                                                                                                                               >  2:974813/1‑101 (MQ=255)

                                                cgccgTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCg                                                                                                                                               <  1:974813/101‑1 (MQ=255)

                                                cgccgTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACa                                                                                              <  1:594923/150‑1 (MQ=255)

                                                      cGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGACCAGCAACAGGCTaa                                                                                        >  2:1401240/1‑150 (MQ=255)

                                                      cGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTAGAAGCGGCTATTGCCCGCGCCAAAGCACGCAAGCTCGAACAGCAACAGGCaaa                                                                                        >  1:636646/1‑150 (MQ=255)

                                                      cGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAACAAGCAATCGCATCGTCTATTGAAAGCGACACAGCTCGAAAGCAGCAACAGCGACCGGCTaa                                                                                        >  2:1345346/1‑150 (MQ=18)

                                                          gCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGACCAGCAACAGGCTAATGCg                                                                                    >  1:1218890/1‑150 (MQ=255)

                                                                  tGCCCTATCCAAAGCGCGCAAACGGGAACACCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAATCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCaga                                                                            <  1:220602/150‑1 (MQ=255)

                                                                      cGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGCAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGACCAGCAACAGGCTAAAGCGGTACAcgaagac                                                                        >  2:747123/1‑149 (MQ=18)

                                                                      cGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCACAAGCCCGCAAGCACGACCAGCAACAGGCTAAAGCCGAACCagaagac                                                                        >  1:668305/1‑149 (MQ=25)

                                                                           cAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTAATGCACGCGCCAAAGCACGCAAGAAGGAACAGCAACAGGCTAATGAGGGACCAGAAGACCAgct                                                                   >  1:1607111/1‑148 (MQ=17)

                                                                              aGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGa                                                                >  1:103393/1‑150 (MQ=255)

                                                                                 gcgcAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTAGAAGCGGCTATTGCCCGCGCCAAAGCACACAAACACGCACAGCACAAGGCTAAAGCGGAACAAGAAGACCAGGTAGATcc                                                             >  2:495325/1‑150 (MQ=21)

                                                                                  cgcAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCcg                                                            >  1:613863/1‑150 (MQ=255)

                                                                                    cAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCACCAGGCTAAAGCGGTACCAGAAGACCAGGTAGAtacccc                                                          >  1:506444/1‑145 (MQ=18)

                                                                                         gggAACAGCAACCGGCTAAAGCGGAGCCAGAAGAACAGGTAGATCCGCGCAAAGCTCCCCAAGAACCGCCTATTGCCCCCGCCAAAGCACGCAAGCTCGAACAGCAACAGGCTAAAGCCGTACCAGAACAACACGATGCTCCGCGCATAg                                                     >  2:901225/1‑150 (MQ=255)

                                                                                          ggAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCGAAAGCACGCAAGCTGGAACAGCAGCAGGCTAATGAGGTGCCAGAAGACCAGGTGGATCCCCCCAAAGc                                                    >  1:380395/1‑150 (MQ=17)

                                                                                              cAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTAGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCa                                                >  1:1547212/1‑150 (MQ=255)

                                                                                                  aaCCGGCTAATGCGTATCCAGAAGAACAGGTCGTTCCCCGCAAAGCTTCCGTCTAAGCTGCTATTGCACGCGCCAAAGCGCGCTAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGTGGCAGTTg                                            <  1:1007113/150‑1 (MQ=14)

                                                                                                    ccGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCAAAAGCAAGCAACCACGAACAGCAACAGGCTAATGAGGTACCAGAAGAACAGGTTGATACGCGCAAAGCGGCAGTTGcc                                          >  2:1319361/1‑150 (MQ=38)

                                                                                                      ggCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACAAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCcgc                                        >  1:114302/1‑150 (MQ=255)

                                                                                                        cTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAACTGCcgctt                                      >  2:804968/1‑148 (MQ=255)

                                                                                                             gCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCACAGCGGCAGTTGCCGCGGCTAtt                                 >  2:1246020/1‑150 (MQ=255)

                                                                                                                  gCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCCCGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCcg                            >  2:837543/1‑150 (MQ=255)

                                                                                                                     agaagaACAGGTTGATCCGCGCAAAGCTGCCGTCGCAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCCgcgc                         >  1:1488410/1‑150 (MQ=255)

                                                                                                                                  atcccGCGCAAAGCCGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCCGCGCTCAGGCCaaaaaa            <  1:247576/147‑1 (MQ=255)

                                                                                                                                    tccccccAAAGCCGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCCGCGCTCAGGCCAAAAAAgc          <  1:169535/144‑1 (MQ=255)

                                                                                                                                      cgcgCAAAGCTGCCGTCTAAGCGGCTATTGCACGAGCCAAAGCCCGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCCGCGCTCAGGCCAAAAAAgccg        <  1:647919/150‑1 (MQ=255)

                                                                                                                                      cgcgCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCCGCGCTCAGGCCAAAAAAgccg        <  2:196269/150‑1 (MQ=255)

                                                                                                                                      cgcgCAAAGCCGCCGTCGAAGCCGCTATTGCCCGAGCAAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAACAACAGGTTGATCAGCGCAAAGCGGCAGTTGCAGCGGCTATTGCACGCGCGCAGGCCaaaaaaagat        >  2:247576/1‑146 (MQ=14)

                                                                                                                                        cgcAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCCGCGCTCAGGCCAAAAAAgccgcc      >  2:461645/1‑150 (MQ=255)

                                                                                                                                            aaGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCCGCGCTCAGGCCAAAAAAGCCGCCcagc  >  2:172092/1‑150 (MQ=255)

                                                                                                                                            aaGCCGCCGTCGAAGCCGCTATTGCCCGTGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAg                                               >  2:851840/1‑105 (MQ=11)

                                                                                                                                            aaGCCGCCGTCGAAGCCGCTATTGCCCGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAg                                               <  1:851840/105‑1 (MQ=255)

GCAACAGGCTAATGCCGAGCCAGAACAACAGGTCGATCCGCGCAAAGCCGCCGTCGAAGCCGCTATTGCCCGAGCCAAAGCGCGCAAACGGGAACAGCAACCGGCTAATGCGGAGCCAGAAGAACAGGTTGATCCGCGCAAAGCTGCCGTCGAAGCGGCTATTGCACGCGCCAAAGCACGCAAGCTGGAACAGCAACAGGCTAATGCGGTACCAGAAGAACAGGTTGATCCGCGCAAAGCGGCAGTTGCCGCGGCTATTGCCCGCGCTCAGGCCAAAAAAGCCGCCCAGC  >  NC_000913/1708829‑1709118

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A