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
A12 F1 I1 R1	65	25.3	1027584	98.0%	1007032	120.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,538,491	C→T	G92D (GGC→GAC)	nanM ←	N‑acetylneuraminic acid mutarotase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,538,491	0	C	T	100.0%	120.5 / NA	35	G92D (GGC→GAC)	nanM	N‑acetylneuraminic acid mutarotase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (19/16); total (19/16)

TGTACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGCCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGTACCATGCCGTACCTGCG  >  NC_000913/4538359‑4538625

tgtACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCaa                                                                                                                                  <  2:409002/139‑1 (MQ=255)

 gtACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCaaa                                                                                                                                 <  2:201773/139‑1 (MQ=255)

          tCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAg                                                                                                                        >  1:9291/1‑139 (MQ=255)

          tCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAg                                                                                                                        >  1:352449/1‑139 (MQ=255)

            acaTGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGAt                                                                                                                      >  2:126271/1‑139 (MQ=255)

            acaTGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGAt                                                                                                                      >  1:27294/1‑139 (MQ=255)

                   ccGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATc                                                                                                               <  1:115568/139‑1 (MQ=255)

                                     cgTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGc                                                                                             >  1:84012/1‑139 (MQ=255)

                                                   ttAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTc                                                                               <  1:7354/139‑1 (MQ=255)

                                                      aCCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGa                                                                                                                       >  2:180687/1‑96 (MQ=255)

                                                      aCCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGa                                                                                                                       <  1:180687/96‑1 (MQ=255)

                                                           aCTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAggg                                                                       >  1:238464/1‑139 (MQ=255)

                                                            cTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATa                                                                                                           >  1:488119/1‑102 (MQ=255)

                                                            cTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATa                                                                                                           <  2:488119/102‑1 (MQ=255)

                                                                    tttGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCt                                                              >  2:213256/1‑139 (MQ=255)

                                                                                   gtgtACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCGATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCAtttt                                               >  1:136196/1‑139 (MQ=255)

                                                                                        cGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATgtcgc                                                                                                                                     >  2:422469/1‑48 (MQ=255)

                                                                                        cGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATgtcgc                                                                                                                                     <  1:422469/48‑1 (MQ=255)

                                                                                        cGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATc                                          >  2:509387/1‑139 (MQ=255)

                                                                                             ttAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTgg                                     <  1:511268/139‑1 (MQ=255)

                                                                                               aaaTACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGcc                                   <  2:9291/139‑1 (MQ=255)

                                                                                                      tGAGTCAAGCCCTCGCTGTTTTTGCCGATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTAt                            <  2:136196/139‑1 (MQ=255)

                                                                                                      tGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTAt                            <  2:27294/139‑1 (MQ=255)

                                                                                                      tGAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTAt                            <  2:84012/139‑1 (MQ=255)

                                                                                                       gAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGTAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATc                           >  2:240222/1‑139 (MQ=255)

                                                                                                       gAGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATc                           >  1:31319/1‑139 (MQ=255)

                                                                                                        aGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATcc                          >  2:27799/1‑139 (MQ=255)

                                                                                                        aGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATcc                          <  2:31319/139‑1 (MQ=255)

                                                                                                        aGTCAAGCCCTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATcc                          >  1:211923/1‑139 (MQ=255)

                                                                                                               cccTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCagag                                                                                                  <  2:176705/60‑1 (MQ=255)

                                                                                                               cccTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCagag                                                                                                  >  1:176705/1‑60 (MQ=255)

                                                                                                               cccTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAAt                                                                    >  1:86773/1‑90 (MQ=255)

                                                                                                               cccTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAAt                                                                    <  2:86773/90‑1 (MQ=255)

                                                                                                               cccTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGt                   >  2:250464/1‑139 (MQ=255)

                                                                                                                 cTCGCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGTAc                 <  1:126271/139‑1 (MQ=255)

                                                                                                                    gCTGTTTTTGCCAATGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTACGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGTACCAt              >  1:315828/1‑139 (MQ=255)

                                                                                                                                aaTGTCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGTAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGTACCATGCCGTACCTgcg  <  1:240222/139‑1 (MQ=255)

TGTACAAAAGTCACATGGCCCGCCATGCCCATCGGCGCGTGCGACATCAATTTAACCCAACTATTGGTTTTGGGGTTGTATTTGTGTACGTCATTAAATACCTGAGTCAAGCCCTCGCTGTTTTTGCCAATGCCGCCAAACACATACAGATTGCCATCAATAAATGCAGAGGTTGCTTGATCTCTTGGTCCGCCAGGGAATGCAGCTAACGCTGTCCATTTTTTATCTTTGGCCTGTGTATCCAGCTTGTACCATGCCGTACCTGCG  >  NC_000913/4538359‑4538625

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `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