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
A19 F73 I1 R1	26	81.7	2791006	99.4%	2774259	139.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,414,536	C→A	L225M (CTG→ATG)	acrE →	multidrug efflux pump membrane fusion lipoprotein AcrE

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,414,536	0	C	A	100.0%	165.2 / NA	49	L225M (CTG→ATG)	acrE	multidrug efflux pump membrane fusion lipoprotein AcrE
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (31/18); total (31/18)

AGCGGACGTATCGGCAAATCGACTGTGACCGAAGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGCTGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAATTCTCCGATGTGACCG  >  NC_000913/3414401‑3414659

aGCGGACGTATCGGCAAATCGACTGTGACCGAAGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGaa                                                                                                                         <  2:487558/140‑1 (MQ=255)

     aCGTATCGGCAAATCGACTGTGACCGAAGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAAt                                                                                                                    <  1:401318/140‑1 (MQ=255)

       gTATCGGCAAATCGACTGTGACCGAAGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATcc                                                                                                                  >  2:954747/1‑140 (MQ=255)

       gTATCGGCAAATCGACTGTGACCGAAGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATcc                                                                                                                  >  1:24194/1‑140 (MQ=255)

          tCGGCAAATCGACTGTGACCGAAGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTa                                                                                                               <  2:1362443/140‑1 (MQ=255)

                aaTCGACTGTGACCGAAGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCaa                                                                                                         <  1:844323/140‑1 (MQ=255)

                            ccGAAGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCAt                                                                                             <  2:461644/140‑1 (MQ=255)

                                aGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAgg                                                                                         >  2:352897/1‑140 (MQ=255)

                                          gTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGccac                                                                               <  1:137096/140‑1 (MQ=255)

                                          gTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGccac                                                                               <  1:484129/140‑1 (MQ=255)

                                             aCTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAg                                                                            <  2:585243/140‑1 (MQ=255)

                                             aCTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAg                                                                            <  1:525142/140‑1 (MQ=255)

                                                    ggCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTa                                                                     >  2:555021/1‑140 (MQ=255)

                                                    ggCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTa                                                                     >  2:335032/1‑140 (MQ=255)

                                                    ggCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTa                                                                     >  1:616878/1‑140 (MQ=255)

                                                    ggCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTa                                                                     >  1:975943/1‑140 (MQ=255)

                                                     gCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTag                                                                    >  1:942640/1‑140 (MQ=255)

                                                      cAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTaga                                                                   >  1:901634/1‑140 (MQ=255)

                                                                     gCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGaaaa                                                    >  2:817484/1‑140 (MQ=255)

                                                                         cTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGt                                                <  1:943455/140‑1 (MQ=255)

                                                                         cTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGt                                                <  2:975943/140‑1 (MQ=255)

                                                                            tCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCaa                                             >  1:1322904/1‑140 (MQ=255)

                                                                            tCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCaa                                             >  1:1331208/1‑140 (MQ=255)

                                                                                gcagcTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCt                                         <  2:850564/140‑1 (MQ=255)

                                                                                  agcTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTAt                                       <  1:975298/140‑1 (MQ=255)

                                                                                     tCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATccc                                    <  1:664435/140‑1 (MQ=255)

                                                                                      cGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATcccc                                   >  1:477026/1‑140 (MQ=255)

                                                                                          ccTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGaa                               <  1:350807/140‑1 (MQ=255)

                                                                                               cTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTa                          <  2:1290456/140‑1 (MQ=255)

                                                                                                  cGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAGAGGTACGc                       >  1:1228530/1‑140 (MQ=255)

                                                                                                   gTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCt                      >  2:569953/1‑140 (MQ=255)

                                                                                                   gTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCt                      >  2:1273904/1‑140 (MQ=255)

                                                                                                   gTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCt                      >  2:563527/1‑140 (MQ=255)

                                                                                                   gTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCt                      >  1:399537/1‑140 (MQ=255)

                                                                                                   gTTGATGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCt                      >  2:366383/1‑140 (MQ=255)

                                                                                                       aTGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCaa                  >  2:432193/1‑140 (MQ=255)

                                                                                                       aTGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCaa                  >  1:339022/1‑140 (MQ=255)

                                                                                                       aTGTGACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCaa                  >  2:1278155/1‑140 (MQ=255)

                                                                                                        tgtgACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAAt                 >  2:489184/1‑140 (MQ=255)

                                                                                                        tgtgACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAAt                 >  2:552784/1‑140 (MQ=255)

                                                                                                        tgtgACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAAt                 >  1:237713/1‑140 (MQ=255)

                                                                                                        tgtgACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAAt                 >  1:1161943/1‑140 (MQ=255)

                                                                                                        tgtgACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAAt                 >  1:63018/1‑140 (MQ=255)

                                                                                                        tgtgACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAAt                 >  1:924670/1‑140 (MQ=255)

                                                                                                         gtgACCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAAtt                <  1:352897/140‑1 (MQ=255)

                                                                                                            aCCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAATtctc             >  1:508194/1‑140 (MQ=255)

                                                                                                            aCCCAATCCAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAATtctc             >  2:564856/1‑140 (MQ=255)

                                                                                                                    cAGCAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAATTCTCCGATGTGa     <  1:954747/140‑1 (MQ=255)

                                                                                                                       cAACGATTTTATGAGGATGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAATTCTCCGATGTGACCg  >  1:628558/1‑140 (MQ=255)

AGCGGACGTATCGGCAAATCGACTGTGACCGAAGGCGCTCTTGTCACTAATGGGCAAACGACTGAACTGGCGACTGTCCAGCAGCTCGATCCTATCTACGTTGATGTGACCCAATCCAGCAACGATTTTATGAGGCTGAAGCAATCCGTAGAGCAAGGAAATTTGCATAAGGAAAACGCCACCAGCAACGTAGAGTTGGTCATGGAAAACGGTCAAACCTATCCCCTGAAAGGTACGCTGCAATTCTCCGATGTGACCG  >  NC_000913/3414401‑3414659

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 24 ≤` `ATCG/ATCG` `< 29 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A