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
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,708,533	C→T	Q539* (CAG→TAG)	rsxC →	SoxR iron‑sulfur cluster reduction factor component, putative membrane‑associated NADH oxidoreductase of electron transport complex

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,708,533	0	C	T	100.0%	98.1 / NA	31	Q539* (CAG→TAG)	rsxC	SoxR iron‑sulfur cluster reduction factor component, putative membrane‑associated NADH oxidoreductase of electron transport complex
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (15/16); total (15/16)

AGAAACAGGCCCAGGCTACACAGCCTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAACAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAGCGCGCAAGCTGGAACAGCAACAGGCTAATGCGGAAC  >  NC_000913/1708423‑1708656

agaAACAGGCCCAGGCTACACAGCCTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACgc                                                                                                 <  2:436188/139‑1 (MQ=255)

  aaaCAGGCCCAGGCTACACAGCCTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACgcag                                                                                               >  2:79195/1‑139 (MQ=255)

      aGGCCCAGGCTACACAGCCTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAAc                                                                                           <  1:747079/139‑1 (MQ=255)

           cAGGCTACACAGCCTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTg                                                                                      <  1:973685/139‑1 (MQ=255)

                   acaGCCTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCaaa                                                                                                           <  2:830729/110‑1 (MQ=255)

                   acaGCCTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCaaa                                                                                                           >  1:830729/1‑110 (MQ=255)

                       ccTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTaa                                                                                                       >  2:83046/1‑110 (MQ=255)

                       ccTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTaa                                                                                                       <  1:83046/110‑1 (MQ=255)

                       ccTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTa                                                                          >  2:926269/1‑139 (MQ=255)

                       ccTACTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCATCAACCGTTGCTGATCCACGTa                                                                          >  2:614856/1‑139 (MQ=255)

                              tgATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGc                                                                   <  2:177175/139‑1 (MQ=255)

                                aTTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCg                                                                 >  2:147783/1‑139 (MQ=255)

                                  tAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGtt                                                               <  1:147783/139‑1 (MQ=255)

                                  tAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGtt                                                               <  1:301636/139‑1 (MQ=255)

                                     aGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGaa                                                            >  1:140018/1‑139 (MQ=255)

                                      gCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAag                                                           <  1:783036/139‑1 (MQ=255)

                                         ggCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAagcag                                                        >  2:1038191/1‑139 (MQ=255)

                                                          cAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCaaa                                       <  1:197378/139‑1 (MQ=255)

                                                               cAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAgcgcg                                  >  2:781339/1‑139 (MQ=255)

                                                               cAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCACGCCAAAgcgcg                                  >  2:275218/1‑139 (MQ=255)

                                                                  ttattGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAGCGCGCaa                               <  2:492734/139‑1 (MQ=255)

                                                                          gcaCGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAGCGCGCAAGCTGGAAc                       >  2:500602/1‑139 (MQ=255)

                                                                          gcaCGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAGCGCGCAAGCTGGAAc                       <  1:79195/139‑1 (MQ=255)

                                                                           caCGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAag                                                           <  2:623236/102‑1 (MQ=255)

                                                                           caCGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAag                                                           >  1:623236/1‑102 (MQ=255)

                                                                               ggAAGCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAGCGCGCAAGCTGGAACAGCaa                  >  2:359597/1‑139 (MQ=255)

                                                                                   gCCCGTAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAGCGCGCAAGCTGGAACAGCAACAgg              >  1:614456/1‑139 (MQ=255)

                                                                                        tAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGTCCGCGCCAAAgcgcg                                  <  2:164227/114‑1 (MQ=255)

                                                                                        tAAAGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGTCCGCGCCAAAgcgcg                                  >  1:164227/1‑114 (MQ=255)

                                                                                          aaGCGCAAGCCAGAGCGAAATAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAGCGCGCAAGCTGGAACAGCAACAGGCTAATGc       <  1:80532/139‑1 (MQ=255)

                                                                                               cAAGCCAGAGCGAAATAGGCAGAACTGCAGCGAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAGCGCGCAAGCTGGAACAGCAACAGGCTAATGCGGAAc  <  2:656635/139‑1 (MQ=255)

AGAAACAGGCCCAGGCTACACAGCCTATTGTGATTAAAGCGGGCGAACGCCCGGATAACAGTGCAATTATTGCAGCACGGGAAGCCCGTAAAGCGCAAGCCAGAGCGAAACAGGCAGAACTGCAGCAAACTAACGACGCAGCAACCGTTGCTGATCCACGTAAAACTGCCGTTGAAGCAGCTATCGCCCGCGCCAAAGCGCGCAAGCTGGAACAGCAACAGGCTAATGCGGAAC  >  NC_000913/1708423‑1708656

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A