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 F8 I1 R1	16	57.5	2022698	92.3%	1866950	143.6

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%	131.3 / NA	46	A1074D (GCT→GAT)	yphG	DUF4380 domain‑containing TPR repeat protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (27/19); total (27/19)

GGTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCA  >  NC_000913_3_pae_tpiA/2679382‑2679665

ggTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGa                                                                                                                                         <  1:761820/149‑1 (MQ=255)

 gTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCACTCCGGAt                                                                                                                                        >  1:313171/1‑149 (MQ=255)

  tttttATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGAtt                                                                                                                                       >  1:840652/1‑149 (MQ=255)

        ttaACAACGGCTTATTCTAATTATTTTGTGATGAGCGTCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGCACTAATCGc                                                                                                                                 >  2:217545/1‑149 (MQ=255)

         taACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGcc                                                                                                                                <  1:18975/149‑1 (MQ=255)

             aacGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGTTTAATCACCGTCa                                                                                                                            >  1:181513/1‑149 (MQ=255)

                ggCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAACAATTAAAGGCATCACTGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCACtt                                                                                                                         >  2:616985/1‑149 (MQ=255)

                ggCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAAtt                                                                                                                         <  1:166578/149‑1 (MQ=255)

                   ttATTCTAATTATTTTGTGATGAGCGGCAGCGAGTCTTAGCGAAATATTACAGTTAATAGGGTTTAGTGAACGAGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAg                                                                                                                      >  1:497433/1‑149 (MQ=255)

                          aaTTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCAAATCCGGANGNANCNCCGTCAATTCAGCGCGAga                                                                                                               >  1:675623/1‑148 (MQ=255)

                           attattTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCa                                                                                                              <  1:260767/149‑1 (MQ=255)

                            ttattTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAg                                                                                                             >  1:927672/1‑149 (MQ=255)

                                tttGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAACGCCATCACGGTGTTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAgcccc                                                                                                         >  2:364712/1‑145 (MQ=255)

                                       tgaGCGGCAGCGCGTGCAACCAAAGTATCAGAGTTAATAGGTTTTGGTGAACGCGGTGAAAAATAGAAGGCATCGCGGTGGTGAATAATGCCGCTTTGGGCCAATCCGGCTTAATAGCCGTCAATTCAGCGCGAGCAGACTCCTAttca                                                                                                  >  2:599681/1‑147 (MQ=255)

                                             gCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCCCGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGAAGACTCATATTGCGCAAcc                                                                                            >  1:118354/1‑149 (MQ=255)

                                                    gtgcaccTCAAATACTAAAGTTAATAGGGTTTAAGGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCTGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGa                                                                                     <  2:775096/143‑1 (MQ=255)

                                                        cGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACCCATATTGCGCAACCTCCCCGAGTcc                                                                                 >  2:852483/1‑149 (MQ=255)

                                                           tCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTAAGCGCGAGCAGAGTACTATTGCGCAAACTCTCCGAGTCCcgc                                                                              >  2:74878/1‑149 (MQ=255)

                                                                      aGTTAATAGGGTGTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCATGCGGCCAATCCGGATAAATCGCCGGCAATTCATCGCGAGCAGACCCGTATTGCGCAACCCCAACGAGTCCCGCCGACGCCaccc                                                                   >  2:302315/1‑146 (MQ=255)

                                                                       gTTAATAGGGTTTAGTGAACGCGGGTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCAt                                                                  >  1:148352/1‑149 (MQ=255)

                                                                        ttAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATATTGCCGCTTTCGGCCAGTCCGGATTAATCGCCGTCAATGCAGCGCGAGCCGCCTCATATTGCGCAGCCTCCCCGAGTCCCGCGGCCGCCGGCATc                                                                 >  1:511272/1‑149 (MQ=255)

                                                                        ttAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGGGAATCCTAATTAATCGCGGTCAATTCAGCGCGGGCAGACTCATATTGAGCAACCTCCCCGAGTCCCGCGGACGCCAGCATc                                                                 >  2:619473/1‑149 (MQ=255)

                                                                             aGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGccac                                                            <  2:850880/149‑1 (MQ=255)

                                                                                 tttAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATc                                                        >  1:81362/1‑149 (MQ=255)

                                                                                  ttAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACTTTCACGAGTGCCGCGGATGCAAGAATCGCACCCATCa                                                       <  2:600606/149‑1 (MQ=255)

                                                                                  ttAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCa                                                       <  2:640542/149‑1 (MQ=255)

                                                                                       gAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCAt                                                  <  1:546866/149‑1 (MQ=255)

                                                                                            cgattAAAAATAAAAGCCATTACGGTGGTGAATAATGCCTCTTTCGGCCAATCCGGATTAATCGCCGTCAATTAAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTc                                             <  2:887215/146‑1 (MQ=255)

                                                                                                          aGGCATCACGGGGGTGAATAATGCCGCTTTCGGCCAATCCAGATTAAGCGCCGTCAATTCAGCGCGAGCATACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCtgtt                               <  1:25130/149‑1 (MQ=255)

                                                                                                             cATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGGCCCGCGGACGCCAGCGTCGCCACAATCAGGCATTTTTCTTTATgctgctactatc                            >  1:321351/1‑143 (MQ=255)

                                                                                                                 aCGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGGGCCACCTCCCCGAGTCCCGCGTACGCCAGCATCCCCACCATCAGGCCTTTTTCTTTATGCTGCTGTTTTaaact                        >  2:618812/1‑147 (MQ=255)

                                                                                                                 aCGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATc                        <  1:90357/149‑1 (MQ=255)

                                                                                                                   ggtggtGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGc                      <  1:469372/149‑1 (MQ=255)

                                                                                                                    gtggtgAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGcc                     <  2:840652/149‑1 (MQ=255)

                                                                                                                         gAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACa                >  2:571952/1‑149 (MQ=255)

                                                                                                                           ataatGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGc              >  1:779471/1‑149 (MQ=255)

                                                                                                                            taatGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCTTTCGTCTTGGTTGTGCTGTTGTAAATCGCCATACAGCg             >  1:786117/1‑149 (MQ=255)

                                                                                                                             aagtccGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGATTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGa            <  2:821590/145‑1 (MQ=255)

                                                                                                                              atGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGac           >  1:309742/1‑149 (MQ=255)

                                                                                                                              atGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATCCTGCTGTTGTAACTCGCCATACAGCGac           >  2:799463/1‑149 (MQ=255)

                                                                                                                                gCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacaa         <  1:74878/149‑1 (MQ=255)

                                                                                                                                 ccGCTTTCTGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacaac        <  1:871251/149‑1 (MQ=255)

                                                                                                                                  cGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTgc                                                                                                  >  2:571542/1‑58 (MQ=255)

                                                                                                                                  cGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTgc                                                                                                  <  1:571542/58‑1 (MQ=255)

                                                                                                                                  cGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacaaca       >  1:977009/1‑149 (MQ=255)

                                                                                                                                       tggtccAATCGGGATTGATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCATCCTCCCCGAGTCCCGCGGACGCCAGCATAGCCACCATCAGGCAGTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCa  <  2:675623/145‑1 (MQ=255)

GGTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCA  >  NC_000913_3_pae_tpiA/2679382‑2679665

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A