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 F28 I1 R1	227	52.0	1764248	99.3%	1751898	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,104,535	A→G	R147R (CGT→CGC)	cpxA ←	sensory histidine kinase CpxA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,104,535	0	A	G	100.0%	107.8 / NA	32	R147R (CGT→CGC)	cpxA	sensory histidine kinase CpxA
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (18/14); total (18/14)

GCGCCGGTTTTGCCAGACTCCAGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGACGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCGGCCTGACCAATAAAGTTACGAATGATCTG  >  NC_000913/4104405‑4104669

gcgcCGGTTTTGCCAGACTCCAGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGa                                                                                                                               >  2:415141/1‑140 (MQ=255)

      gTTTTGCCAGACTCCAGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGt                                                                                                                         <  2:3871/140‑1 (MQ=255)

      gTTTTGCCAGACTCCAGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGt                                                                                                                         <  1:415141/140‑1 (MQ=255)

                 cTCCAGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATc                                                                                                              >  1:171218/1‑140 (MQ=255)

                 cTCCAGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATc                                                                                                              <  1:685923/140‑1 (MQ=255)

                   ccAGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCtt                                                                                                            <  2:260463/140‑1 (MQ=255)

                   ccAGGCCAACCACAACAGCAGCGGCCTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGACAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCtt                                                                                                            <  2:600717/140‑1 (MQ=255)

                     aGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTAt                                                                                                               >  1:262742/1‑135 (MQ=255)

                     aGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTAt                                                                                                               <  2:262742/135‑1 (MQ=255)

                         cAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTAGCCAt                                                                                                      <  2:796827/140‑1 (MQ=255)

                                          gcgTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGga                                                                                     <  1:605437/140‑1 (MQ=255)

                                                       cATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCa                                                                        >  1:325053/1‑140 (MQ=255)

                                                            tGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCgg                                                                   >  1:546208/1‑140 (MQ=255)

                                                            tGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCgg                                                                   >  1:553309/1‑140 (MQ=255)

                                                                 aTCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATa                                                              >  1:717737/1‑140 (MQ=255)

                                                                 aTCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATa                                                              >  1:793132/1‑140 (MQ=255)

                                                                  tCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATAc                                                             >  1:195982/1‑140 (MQ=255)

                                                                              gcgggcggTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGc                                                 >  1:537650/1‑140 (MQ=255)

                                                                                 ggcggTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGga                                              >  1:57933/1‑140 (MQ=255)

                                                                                   cggTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGgatg                                            >  1:3500/1‑140 (MQ=255)

                                                                                   cggTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGgatg                                            >  1:673331/1‑140 (MQ=255)

                                                                                        aaaCAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCgg                                       <  2:537650/140‑1 (MQ=255)

                                                                                             gTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTa                                  <  2:845111/140‑1 (MQ=255)

                                                                                                aGTTAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCg                               >  2:800389/1‑140 (MQ=255)

                                                                                                  ttAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCGGc                             <  1:706876/140‑1 (MQ=255)

                                                                                                  ttAATGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCGGc                             <  2:793132/140‑1 (MQ=255)

                                                                                                    aaTGAAATCGGATTGAGAACTGCTGGCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCGGCCt                           <  2:673331/140‑1 (MQ=255)

                                                                                                                            ggCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCGGCCTGACCAATAAAGTTACGAATGATCt   <  2:195982/140‑1 (MQ=255)

                                                                                                                             gCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCGGCCTGACCAATAAAGTTACGAATGATCTg  >  1:745342/1‑140 (MQ=255)

                                                                                                                             gCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCGGCCTGACCAATAAAGTTACGAATGATCTg  >  2:390219/1‑140 (MQ=255)

                                                                                                                             gCCGGGCGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCGGCCTGACCAATAAAGTTACGAATGATCTg  >  1:106754/1‑140 (MQ=255)

                                                                                                                             gCCGGGCGAATCAGATAAAGTTGGGAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCAACGCGGCCATACTTTTTCTTCTGCGGGTGATCGGCGTTATCGGCCTGACCGATAAGGTTACGAATGATCTg  >  2:878271/1‑140 (MQ=255)

GCGCCGGTTTTGCCAGACTCCAGGCCAACCACAACAGCAGCGGCGTACTGACCAACATGGTGACAATCAGCAGTAATAGCGGGCGGTCAAACAGTAAGTTAATGAAATCGGATTGAGAACTGCTGGCCGGACGAATCAGATAAAGTTGGTAATTATCTTCGCCATCACGCACGGAGAACGGACCGACCAGTTCCACGCGGCCATACTTTTTCTTCTGCGGATGATCGGCGTTATCGGCCTGACCAATAAAGTTACGAATGATCTG  >  NC_000913/4104405‑4104669

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A