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
A1 F113 I2 R1 19 51.3 1830242 91.7% 1678331 142.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,707,560 Δ1 bp coding (242/480 nt) rseC ← SoxR iron‑sulfur cluster reduction factor component

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,707,5580A.100.0% 191.7 / NA 44coding (244/480 nt)rseCSoxR iron‑sulfur cluster reduction factor component
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (18/26);  total (18/26)

AAACTTACGCGAGTAGCCGCGCGCAATCAGGAACCCGCCAATACCACCGAGGATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATATAAACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACAATGGTATGCGTGGTTTGCGGGCCAAGTTTATTTAACACGCGGCT  >  NC_000913/2707418‑2707693
                                                                                                                                            |                                                                                                                                       
agaCTTACGCGAGGAGCCGCGCGCAACCAGGAACCCGCCAATACCACCGAGGATCGCACCACATGATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGCAGCGATAAGGAATAATCCCACCAGCGGCGACATACaac                                                                                                                                       <  1:185391/141‑2 (MQ=255)
  aCTTACGCGAGTAGCCGCGCGCAATCAGGAACCCGCCAATACCACCGAGGATCGCACCACATAATGCTGCGACGCCAGAAGCAAAGAGGAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGCCAtctaccca                                                                                                                                     >  2:54768/1‑139 (MQ=255)
           aGTAGCCGGGCGCAATCAGGAACCCGCCAATACCACCGAGGATCGCACCACATAATTCGGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAATGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCgg                                                                                                                           <  2:499808/143‑1 (MQ=255)
           aGTAGCCGCGTGCAAGCAGGAACCCGCCAATACCACCGAGGATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCTAAGCTATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCgg                                                                                                                           <  2:499811/143‑1 (MQ=255)
             tggCCGCGCGCAATCAGGACCCAGCCAATACCGCTGAGGATCGCACCACATAATGCTTCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATATGGTATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAg                                                                                                                         <  2:565920/141‑1 (MQ=255)
             tAGCCGCGCGCAATCAGGAACCCGCCAATACCACCGAGGATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGTGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAg                                                                                                                         <  2:227764/143‑1 (MQ=255)
             gaGCCGCGCGAAATCAGGAACCCGCCAATACCGCCGAGGACCGCACCACATAATGCGGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAg                                                                                                                         <  2:456170/142‑1 (MQ=255)
                ccGCGCGCAATCAGGAACCCGCCAATACCACCGAGGATCGCACCACATAAGGCTGCGACGTCCGCCGCAAAGAGCAGCTGAAAAAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCCGTAATCCGGCGCTa                                                                                                                      >  2:324882/1‑143 (MQ=255)
                 cgcgcgCAATCAGGAACCCGCCAATACCACCGAGGATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTaa                                                                                                                     <  1:472334/143‑1 (MQ=255)
                      gaaagcAGGAACGCGCAAAAACCTCCGCGACACTCACCACATACTGCTGCAACGACAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAgg                                                                                                                <  2:839179/138‑1 (MQ=255)
                            aGGAACCCGCCAATACCACCGAGGATCGCACCGCATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCt                                                                                                          >  2:79136/1‑143 (MQ=255)
                              gAACCCGCCAATACCACCGAGGATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCCGTAATCCGGAGCTAAGCAGGCTGCCTTc                                                                                                        >  2:15450/1‑143 (MQ=255)
                              gAACCCGCCAATACCACCGAGGATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTc                                                                                                        >  1:648389/1‑143 (MQ=255)
                                 cccGGCCATACCACCGAGGAGCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGc                                                                                                     <  1:318630/143‑1 (MQ=255)
                                       aaTACCACCGAGGATCGCACCACATAACGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATccc                                                                                               <  1:884719/143‑1 (MQ=255)
                                              ccGAGGATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTcc                                                                                        <  1:652731/143‑1 (MQ=255)
                                              ccGAGGATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCACCAATTcc                                                                                        >  1:556380/1‑143 (MQ=255)
                                               cGAGGATCGCACCACATAACGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCa                                                                                       <  1:485709/143‑1 (MQ=255)
                                                   gATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCCCGCTGCCTTCGGCGATCCCCAAGTCCACtct                                                                                   >  2:438503/1‑141 (MQ=255)
                                                   gATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACttt                                                                                   >  1:837688/1‑143 (MQ=255)
                                                    aTCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATCCCACtttt                                                                                  >  2:891225/1‑143 (MQ=255)
                                                     tCGCATCACATAATGATGCGACGTCAGAAGCAAAGAGGAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACttttt                                                                                 <  1:177/143‑1 (MQ=255)
                                                           cacaTAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCCGGCTGCCTTCGGCGCTACCCAATTACACTTTTTGCcgcg                                                                           >  1:848987/1‑143 (MQ=255)
                                                            acaTAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCgg                                                                          <  1:683829/143‑1 (MQ=255)
                                                                    cggcGACGTGTGGAGCAAGGCGTAGCTGCGATAGCGAGGCGATAGGGTATAATGCCTCTAGCGGCGACATAT‑ACGCTGTAATGCGGAGCTAAGGAGGCTGCCTTCGGCGCTTCTCAATTCCACTTTTTGCCCCGGCACTAACg                                                                  <  2:604342/141‑1 (MQ=255)
                                                                       ccacctCAGAAGCAAAGAGCAGCTGGAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTACGGCGCTCCCCAATGCCACTTTTTGCCCCGGCACTAACGGCt                                                               <  2:748691/138‑1 (MQ=255)
                                                                         acgcaaGAAGCAACGAGGAGCGGAAAGAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTACTGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACGTTTTGCCCCGGCACTAACGGCtca                                                             <  1:98186/138‑1 (MQ=255)
                                                                            tCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCCCGTGTTGCCCCGGCACCAACGGCtcaaca                                                          >  2:346745/1‑143 (MQ=255)
                                                                            tCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCtcatca                                                          >  1:388607/1‑143 (MQ=255)
                                                                                         gTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACaa                                             <  1:485524/143‑1 (MQ=255)
                                                                                         gTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAAAGCAGAGCTAAGCAGGCTGCCTTCGTCGATCCCCAATTCCACTTTTTGCCCCGGCAATAACGGCTCATCACAGGGTACGACaa                                             <  1:211778/143‑1 (MQ=255)
                                                                                          tAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAAATCCATTTCTTGTCTTGGCACTTACGGCTCATCACAGGGTACGACAAt                                            <  1:627153/143‑1 (MQ=255)
                                                                                            gCTGAAAGAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCCCATCACAGAGTACGACAACgg                                          >  2:816234/1‑143 (MQ=255)
                                                                                             cTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACCATGGt                                         >  1:278781/1‑143 (MQ=255)
                                                                                                   gcgcgaagcgaTAAGGCAGAGTCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAAGCACACTTTTTGACCCGGCACTTACGGCTGGTCACAGGGTACGACAATGGTATGCGt                                   <  2:894282/141‑1 (MQ=255)
                                                                                                       gaagcgaTAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACAATGGTATGCGTGGtt                               >  2:281491/1‑143 (MQ=255)
                                                                                                            gaaaaGGAATAATCCCACCAGCGGCGACAGAT‑AACCAGTAACGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACAATGGTATGCGTGGTTTGCgg                          <  1:323479/140‑1 (MQ=255)
                                                                                                            gaTAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACAATGGTATGCGTGGTTTGCgg                          <  1:53843/143‑1 (MQ=255)
                                                                                                            gaTAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACAATGGTATGCGTGGTTTGCgg                          <  1:737178/143‑1 (MQ=255)
                                                                                                            gaTAAGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATCCCACTTTTTGCCCCGGCACTAACGGCTCATCCCAGGGTACGACAATGGTATGCGCGGTTTGccg                          >  2:660543/1‑141 (MQ=255)
                                                                                                                aGGAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTACACTTTTTGCCCAGGCACTAACGGCTCATCACAGGGTACGAAAAAGGTCTGCGTGGTTTGACGGCCa                      >  2:284268/1‑143 (MQ=255)
                                                                                                                 ggAATAATCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACAATGGTATGCGTGGTTTGCGGGCCaa                     <  1:79136/143‑1 (MQ=255)
                                                                                                                        tCCCACCAGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACCACAATGGTATGCGTTGTTTGCGCGCCAAGtttatt              >  1:282856/1‑143 (MQ=255)
                                                                                                                           caccaGCGGCGACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACAATGGTATGCGTGGTTTGCGGGCCAAGTTTATTTaa           <  2:388607/143‑1 (MQ=255)
                                                                                                                                 cggcgACATAT‑CACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACAATGGTATGCGTGGTTTGCGGGCCAAGTTTATTTAACAcgcg     <  2:767663/143‑1 (MQ=255)
                                                                                                                                    cgACATAT‑AACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATACCCAATTCCACTTTTTGGCCAGGAAGTCACGGCGCATCGCAGGGTACGACAATGGTATGCGTGGTTTGCGGGCCGAGTTTAGTAAACACGCGGCt  >  1:85604/1‑143 (MQ=255)
                                                                                                                                            |                                                                                                                                       
AAACTTACGCGAGTAGCCGCGCGCAATCAGGAACCCGCCAATACCACCGAGGATCGCACCACATAATGCTGCGACGTCAGAAGCAAAGAGTAGCTGAAATAGCGAAGCGATAAGGAATAATCCCACCAGCGGCGACATATAAACCAGTAATGCGGAGCTAAGCAGGCTGCCTTCGGCGATCCCCAATTCCACTTTTTGCCCCGGCACTAACGGCTCATCACAGGGTACGACAATGGTATGCGTGGTTTGCGGGCCAAGTTTATTTAACACGCGGCT  >  NC_000913/2707418‑2707693

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