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
A9 F59 I0 R1	41	42.9	928050	95.2%	883503	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,761,889	C→A	100%	D388Y (GAT→TAT)	folC ←	tetrahydrofolate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,761,889	0	C	A	100.0%	163.8 / NA	50	D388Y (GAT→TAT)	folC	tetrahydrofolate synthase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (29/21); total (29/21)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTCTTCATGGCTATTTTAGTTTTAGTTTTATAATGCTTCAAAGTCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATCTACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGCGCAATTAAACTTAAATGTTTGACCATCTCGTTAATCGGTTTTC  >  CP000730/1761752‑1762026

ttcttcATGGCTATTTTAGTTTTAGTTTTATAATGCTTCAAAGTCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATatac                                                                                                                                        >  1:370132/1‑141 (MQ=255)

       tGGCTATTTTAGTTTTAGTTTTATAATGCTTCAAAGTCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGt                                                                                                                                 <  2:303814/141‑1 (MQ=255)

                 agttttagttttATAATGCTTCCACGTCTAATTTTGATTTAACTTCACTGATAAAATACAGACTACCGGTAATTACGAATGGATCACCTGGATAATTTTTTATAAAGTCAACGTAGTCATATACTAATTGTATTTcatcat                                                                                                                       <  2:268002/141‑1 (MQ=255)

                  gttttagttttaTAAAGCTTCAAAGTACAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCAtt                                                                                                                      <  1:262826/141‑1 (MQ=255)

                     ttagttttaTAATGCTTCAAAGTCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAGTTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTc                                                                                                                   >  1:160154/1‑141 (MQ=255)

                            tataATGCTTCAAAGTCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAAtacta                                                                                                            >  2:460086/1‑141 (MQ=255)

                            tataATGCTTCAAAGTCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAAtacta                                                                                                            >  1:391794/1‑141 (MQ=255)

                                  gCTTCAAAGTCTAATTTTGATGTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACa                                                                                                      >  2:169688/1‑141 (MQ=255)

                                    ttacaaGTATAATGTTGATCTAACTTCACTTATGAAATACAGGTTCCCGGTTATTACTAATGTATCACCTTGATAATTCTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAAt                                                                                                    <  2:263462/137‑1 (MQ=255)

                                     tCAAAGTCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAAtt                                                                                                   >  1:121173/1‑141 (MQ=255)

                                      cAAAGTCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAAttt                                                                                                  >  1:399291/1‑141 (MQ=255)

                                         aggcTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATttctt                                                                                               >  2:232615/4‑141 (MQ=255)

                                           tCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTtcttct                                                                                             >  1:429852/1‑141 (MQ=255)

                                            cTAATTTTGATTTAACTTCACTTATGAAATACAGACAACCGGGAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTcttctt                                                                                            >  2:2481/1‑141 (MQ=255)

                                               aTTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGc                                                                                         >  2:68608/1‑141 (MQ=255)

                                                 tttGATTTAACTTCCCTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGACAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGt                                                                                       <  2:233370/141‑1 (MQ=255)

                                                 tttGATTTAACTTCACTTATGAAATAGAGACTTCCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGt                                                                                       <  1:421696/141‑1 (MQ=255)

                                                 tttGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGt                                                                                       <  1:415838/141‑1 (MQ=255)

                                                  ttGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACATAGGCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTa                                                                                      <  1:159894/141‑1 (MQ=255)

                                                             tCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCGTTTTCAATACTACCTACCATTTCTTTTTTGCGTAAAGCTTTCGGa                                                                           >  1:54528/1‑141 (MQ=255)

                                                                  tATTAAATACCGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATc                                                                      <  1:42825/141‑1 (MQ=255)

                                                                  tATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAAta                                                                      >  1:100660/1‑140 (MQ=255)

                                                                   aTGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCa                                                                     <  2:441992/141‑1 (MQ=255)

                                                                    tGAAATACAGACTACCGGTAATTCCTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTCTTTCATCATTTTCAATGCTACCTACCATTTCTTCTTTGCGTAACGCTTCCTGaaagatca                                                                    >  2:427783/1‑136 (MQ=255)

                                                                    tGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCaa                                                                    <  2:121173/141‑1 (MQ=255)

                                                                     taaaTACAGACCACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCaaa                                                                   <  1:114440/140‑1 (MQ=255)

                                                                          aCAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAg                                                              >  2:264387/1‑141 (MQ=255)

                                                                           cAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGt                                                             <  1:134146/141‑1 (MQ=255)

                                                                             gACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTg                                                           >  1:35817/1‑141 (MQ=255)

                                                                             gACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATCGCTTCTTTGCGTAAGCCTTTAGGAAAATCAAATTCAGttt                                                           >  2:111499/1‑140 (MQ=255)

                                                                              aCTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGc                                                          >  2:442898/1‑141 (MQ=255)

                                                                                tACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCAt                                                        <  1:452641/141‑1 (MQ=255)

                                                                                tACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCAt                                                        <  1:452617/141‑1 (MQ=255)

                                                                                 aCCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATa                                                       <  1:68608/141‑1 (MQ=255)

                                                                                 aCCGGGAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATa                                                       <  2:164954/141‑1 (MQ=255)

                                                                                   cGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATaaa                                                     >  1:246168/1‑141 (MQ=255)

                                                                                           aCTAATGTATCACCTTGATAATTTTTTATAAAGTCAACGTAGTCATATACTAATTGCATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATgc                                             >  1:128227/1‑141 (MQ=255)

                                                                                            cTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATgcg                                            >  2:1159/1‑141 (MQ=255)

                                                                                            cTAATGTATCACCTTGAGAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGTGTTTCAAATTCAGTTGCATAAAACGTATgcg                                            <  1:17904/141‑1 (MQ=255)

                                                                                                    tCACCTTGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCCTAAAGCCTCCGCATAATCAAATTCAGTTGCTTAAAACGTATGCGCAATaaaa                                    >  2:393487/1‑141 (MQ=255)

                                                                                                         ttGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGCGCAATTAACCTTaa                               >  1:150698/1‑141 (MQ=255)

                                                                                                          tGATAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGAGCAATTAAACTTaaa                              >  2:380242/1‑141 (MQ=255)

                                                                                                             ttaTTTTTTATAAATTCAACGTAGTCATATCCTGATTGTCTTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGCGCAATTAACCTTAAATGt                           <  2:320277/139‑1 (MQ=255)

                                                                                                             tAATTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACTTATGCGCAATTAAACCTAAAttt                           >  2:118445/1‑139 (MQ=255)

                                                                                                               aTTTTTTATAAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGCGCAATTAAACTTAAATGttt                         >  2:382569/1‑141 (MQ=255)

                                                                                                                      ataAATTCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGCGCAATTAAACTTAAATGTTTGACCAtc                  <  2:401283/141‑1 (MQ=255)

                                                                                                                           ttCAACGTAGTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTCTGCGCAATTAAACTTAAATGTTTGACCATCTCGtt             >  2:323584/1‑141 (MQ=255)

                                                                                                                              aaCGTAGTCATATACTGATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGCGCAATTAAACTTAAATGTTTGACCATCTCGTTAAt          <  2:217871/141‑1 (MQ=255)

                                                                                                                                    gTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGCGCAATTAAACTTAAATGTTTGACCATCTCGTTAATCGGttt    >  1:368128/1‑141 (MQ=255)

                                                                                                                                    gTCATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGCGCAATTAAACTTAAATGTTTGACCATCTCATTAATCGGttt    >  1:368180/1‑141 (MQ=255)

                                                                                                                                      cATATACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAACTCAAATTCAGTTGCATAAAACGTATGCGCAATTAAACTTAAATGTTTGACCATCTCGTTACTCGGTTTTc  >  2:179238/1‑141 (MQ=255)

TTCTTCATGGCTATTTTAGTTTTAGTTTTATAATGCTTCAAAGTCTAATTTTGATTTAACTTCACTTATGAAATACAGACTACCGGTAATTACTAATGTATCACCTTGATAATTTTTTATAAATTCAACGTAGTCATCTACTAATTGTATTTCATCATTTTCAATACTACCTACAATTTCTTCTTTGCGTAACGCTTTCGGAAAATCAAATTCAGTTGCATAAAACGTATGCGCAATTAAACTTAAATGTTTGACCATCTCGTTAATCGGTTTTC  >  CP000730/1761752‑1762026

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A