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
A21 F5 I1 R1	17	45.4	1637102	94.6%	1548698	142.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	2,679,525	G→T	A1074D (GCT→GAT)	yphG ←	DUF4380 domain‑containing TPR repeat protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	2,679,525	0	G	T	100.0%	118.5 / NA	38	A1074D (GCT→GAT)	yphG	DUF4380 domain‑containing TPR repeat protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (17/21); total (17/21)

TTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAGGTTG  >  NC_000913_3_pae_tpiA/2679386‑2679670

tttATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAATGCATCACGGTGGTGAATAATGCCGCTTCCGGCCAATCCGGATTaa                                                                                                                                          >  2:400656/1‑149 (MQ=255)

    ttaACCACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTAAAATATTAAAGTTATTAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATACGGATTAATCGc                                                                                                                                      >  1:163907/1‑149 (MQ=255)

       aaaacGACTTATTCTAATTATTTTGTGAGGAACGGCAGCGCCTGCCGCTCAAATATTACAGTAAATAGGCTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTCGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGt                                                                                                                                   <  2:15471/147‑1 (MQ=255)

                       attattTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGCGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCa                                                                                                                   <  2:415171/149‑1 (MQ=255)

                            tttGTGAGGAGTGGCAGCGGGTGCCGTTAAAATATTAGAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTc                                                                                                              <  2:348630/149‑1 (MQ=255)

                             tggtgATGGGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAAGAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCa                                                                                                             <  2:728403/147‑1 (MQ=255)

                                    gaGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGCTTAGTCGCCGTCAATTCAGCGCGAGCAGACTCATATTgcg                                                                                                      >  2:439185/1‑149 (MQ=255)

                                      gCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAACTAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCACTCCGGATTAATCGCCGTCAACTCAGCGCGAGCAGACTCATATTccgcc                                                                                                    >  2:704471/1‑148 (MQ=255)

                                      gCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGCCTCATATTGCGCa                                                                                                    >  1:172921/1‑149 (MQ=255)

                                      gCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCa                                                                                                    >  1:528618/1‑149 (MQ=255)

                                        ggCAGCGCGGTCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAAGGCCGCTTTCGGCCAATCCGGATTAATCGCCGGCAATTCAGCGCGAGCAGACTCATATTGCGCAAc                                                                                                  <  1:26937/149‑1 (MQ=255)

                                              gcgTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATAtt                                                                                                         >  1:812321/1‑136 (MQ=255)

                                              gcgTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATAtt                                                                                                         <  2:812321/136‑1 (MQ=255)

                                                   gcGCACAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTc                                                                                       <  1:184494/148‑1 (MQ=255)

                                                         aaaTATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGGGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCgg                                                                                 >  2:249068/1‑149 (MQ=255)

                                                          aaTATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGa                                                                                <  1:443760/149‑1 (MQ=255)

                                                               tACAGTGAAGATGGGTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCCACCTCCCCGAGTCCCGCGGACGCCa                                                                           >  2:101682/1‑149 (MQ=255)

                                                                 cAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATGCGGATTAATCGCCGTCAATTCTGCGCGAGCAGACTCATATTGCGCAACCTCCCCCAGTCCCGCGGACGACAGc                                                                         >  2:774964/1‑149 (MQ=255)

                                                                           ggTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGccacca                                                               >  2:676751/1‑149 (MQ=255)

                                                                            gTTTAGTTAACGCGGTTAAAAATAAAAGGCATCACGGTGGTTAATACTGCCGCTTTCGGCCAATCCGGATTAATCTCCGGCAACTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCAt                                                              <  1:32809/149‑1 (MQ=255)

                                                                            gTTTAGTGAACGCTGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCAt                                                              <  1:138163/149‑1 (MQ=255)

                                                                             tttAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTGATATTGCGCGACCTCCCCGAGACCCGCGGACGCCAGCATCGCCACCATc                                                             >  2:294775/1‑149 (MQ=255)

                                                                                            tAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTa                                              <  1:695077/149‑1 (MQ=255)

                                                                                               aaaTAAAAGGCATCACGGTGGTGAGTAATGCCGCTTTCGGCCAATCCGGATTAATCGCTGTCAATTCAGCGCGGGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCGACCACCAGGCATTTTTCTTTAtgc                                           >  1:736305/1‑149 (MQ=255)

                                                                                               aaaTAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGCCCCGCGGACGCCAGCATCGCCACCATCAGCCATTTTTCTTTAtgc                                           >  2:619692/1‑149 (MQ=255)

                                                                                                 aTAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTAtgcgg                                         >  1:127035/1‑147 (MQ=255)

                                                                                                 aTAAAAGGCATCACGGTGGTGAACAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTAtgctg                                         <  1:95455/149‑1 (MQ=255)

                                                                                                      aGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCtgtt                                    <  1:507263/149‑1 (MQ=255)

                                                                                                        gCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGa                                                                                          >  2:131941/1‑93 (MQ=255)

                                                                                                        gCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGa                                                                                          <  1:131941/93‑1 (MQ=255)

                                                                                                        gCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCtgttgt                                  <  1:710628/149‑1 (MQ=255)

                                                                                                                 tggtgAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCa                         <  1:478282/149‑1 (MQ=255)

                                                                                                                      aataatGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATCCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCTGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAg                    <  1:277512/149‑1 (MQ=255)

                                                                                                                       ataatGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGc                   <  1:118348/149‑1 (MQ=255)

                                                                                                                            gCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacaa              <  1:670471/149‑1 (MQ=255)

                                                                                                                               gCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGAcaacaa           <  1:249068/149‑1 (MQ=255)

                                                                                                                                     ggCCAATCCGGATTAATCGCCGGCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAgg     <  2:461832/149‑1 (MQ=255)

                                                                                                                                        cAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCCGCTTg  >  2:534553/1‑149 (MQ=255)

TTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAGGTTG  >  NC_000913_3_pae_tpiA/2679386‑2679670

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A