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 F59 I0 R1 60 41.1 1578944 90.5% 1428944 142.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 454,891 G→T 100% intergenic (+102/‑242) bolA → / → tig DNA‑binding transcriptional dual regulator BolA/trigger factor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913454,8910GT95.8% 97.0 / ‑3.5 43intergenic (+102/‑242)bolA/tigDNA‑binding transcriptional dual regulator BolA/trigger factor
Reads supporting (aligned to +/- strand):  ref base G (1/2);  new base T (20/18);  total (21/22)
Fisher's exact test for biased strand distribution p-value = 6.06e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CTCTCCTCCCTGTCGTGGAGCAGGAAGCATCGCGTAAAAACGCATTTGCAACTGTCGGCGCTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTGCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCGGGATGATTCTGGTAAC  >  NC_000913/454753‑455028
                                                                                                                                          |                                                                                                                                          
ctctCCTCCCTGTCGTGGAGCAGGAAGCATCGCGTAAAAACGCATTTGCAACTGTCGGCGCTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCa                                                                                                                                        >  2:783995/1‑143 (MQ=255)
             cGTGGAGCAGGAAGCATCGCGTAAAAACGCATTTGCAACTGTCGGCGCTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTGCCCAGCATT‑CAGACGaa                                                                                                                          <  1:421344/143‑1 (MQ=255)
                      ggAAGCAGCGCGTAAAAACGCATTTGCAACTGTCGGCGCTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCg                                                                                                                 <  1:768983/143‑1 (MQ=255)
                                cgTAAAAACGCATTTGCAACTGTCGGCGCTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGACAATTGCCCGGGAATGGTGa                                                                                                       >  1:754777/1‑143 (MQ=255)
                                                 aaCTGTCGGCGCTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAgcg                                                                                      >  2:64566/1‑143 (MQ=255)
                                                      tCGGCGCTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCCTT‑CAGACGAAAATTGCCCGGGAGTTGCGAAAAAATTCGCGCCCgcgcccca                                                                                 >  1:31796/1‑139 (MQ=255)
                                                          cgcTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAAc                                                                             <  2:707428/143‑1 (MQ=255)
                                                           gcTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGCCAGCGCGCAATCAcc                                                                            >  1:591844/1‑143 (MQ=255)
                                                           gcTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAAcc                                                                            >  1:681161/1‑143 (MQ=255)
                                                           gcTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGGCACGATGCTTCTTTATTTTGAGGGTTCTGCCCAGCATT‑CAGACGAAAATTGCCGGGGAATTGTGAAAAAATACGCGACAGCGCGGAATCAcc                                                                            >  1:182446/1‑143 (MQ=255)
                                                                 tcAGTATGTTGTTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCGGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTtctc                                                                      <  1:246588/142‑1 (MQ=255)
                                                                 gcAGTGTGTTGCTAAATATTTTATTAAAACCGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTGTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTtctc                                                                      <  2:74862/142‑1 (MQ=255)
                                                                 ccAGTATGTTGCTAAAGATTTTATGAAATCCGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTtctc                                                                      <  1:431547/143‑1 (MQ=255)
                                                                  cAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTtctgg                                                                     >  1:373506/1‑141 (MQ=255)
                                                                        gTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAACTTGCCCGGGAATTGTCAAAAAATACCCCACAGCGCCGAACAACCTTtctctgcacat                                                               >  2:312518/1‑136 (MQ=255)
                                                                          tGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATaa                                                             <  1:768752/143‑1 (MQ=255)
                                                                            cTAAAGATTTTATGAAAAACGGCCTGCGTGCCGTTTTGATGGATCTTGATTTTGCGCTTTTTTCCCAGCATT‑CAGGCGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATaaaa                                                           <  2:346068/143‑1 (MQ=255)
                                                                             tAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTTTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAAGTGCCCGGGTATTGTGAAAAAATACGAGACAGAGGGGAATAACCGTTGTCGAATCAGaaagg                                                          >  2:115084/1‑141 (MQ=255)
                                                                             tAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTGCCAGCGTT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATCACCGTTCTCGCCTCATAACAg                                                          >  2:382304/1‑143 (MQ=255)
                                                                             tAAAGATTCTATGAAAAACGGCCTGCGGGCCGTGTTGTTTTGTCTGGCTTTTGCGCTTTTTTCCCAGCATT‑CCGACAAAAATTGCCCGGGCATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAg                                                          <  1:257534/143‑1 (MQ=255)
                                                                              aaaGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAACATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGt                                                         >  2:483514/1‑143 (MQ=255)
                                                                              aaaGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGt                                                         >  1:332898/1‑143 (MQ=255)
                                                                              aaaGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATCTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGt                                                         <  1:68412/143‑1 (MQ=255)
                                                                                agagTTTATGAATAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGa                                                       <  2:211854/143‑1 (MQ=255)
                                                                                    tttATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGcc                                                   >  1:644494/1‑143 (MQ=255)
                                                                                        tGAAAACCGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTCCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCta                                               <  1:97391/143‑1 (MQ=255)
                                                                                         gAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGGGGTTTTTTCCGAGCATT‑CAGACGAAAATTGCGGGGGAATGGTGAAAGAATACGCGACAGCGCGCAGTAACCGGTCTGGACTCATAAAAGTGATGGCGCtat                                              >  1:389492/1‑143 (MQ=255)
                                                                                               cGGCCTGCGGGCCGAGGTGGTGTGTCTGGATGTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGcc                                        <  1:10350/143‑1 (MQ=255)
                                                                                                      cGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAATTTGCCCGGGAATTGTGAAAAACTACGCGACAGCGCGCCATAACCGTTCTCGACTCATAACAGTGATGCCGCCATAATGCCGCGTCCt                                 >  2:481279/1‑143 (MQ=255)
                                                                                                        ggCCGTTGTGTTGTGTCTGGATTTTGCGTTTTTGTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAGAATACGCGACAGCGCGCAATAACCGTGCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTAt                               <  2:269909/143‑1 (MQ=255)
                                                                                                         gCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTCCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGCCTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTCtt                              >  2:266398/1‑143 (MQ=255)
                                                                                                             ttttgttttgTCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGaa                          >  1:260572/1‑143 (MQ=255)
                                                                                                             gtttggtttgtCCGTATTTTGCGCTTTTTTCCCATCATT‑CGGACGAAATTTGCCCGGGTATTGTGAAAAAATATGCGACTGCGCGCACTACCCGTTCTCGACTCATAAAAGTGATGCTTCTATAATGCCGCGTCCTATTTGaa                          <  2:318282/142‑1 (MQ=255)
                                                                                                                     tgtCTGGATTTTGCGCTTTTTTCCCAGCATT‑CACACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACCCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCg                  <  2:23077/143‑1 (MQ=255)
                                                                                                                      gtCTGGATTTGGCGTTTGTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAAAAAACGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCgg                 <  1:403047/143‑1 (MQ=255)
                                                                                                                       tCTGGATTTTGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTCTTTGAATGCTTTCtgg                >  1:434730/1‑143 (MQ=255)
                                                                                                                        cTGGATTGTGGGCGTTTGGCCGAGCATT‑CAGTCGAAAATTGCCCGGGCATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCGGga               <  2:273980/143‑1 (MQ=255)
                                                                                                                             ttttGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCGGGATGAtt          >  1:476584/1‑143 (MQ=255)
                                                                                                                                tGCGCTTTTTTCCCAGCATT‑CATACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATATCCGTTCTCGACTCTTAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCGGGATGATTCTg       <  2:787980/143‑1 (MQ=255)
                                                                                                                                tGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCGGGATGATTCTg       <  1:783995/143‑1 (MQ=255)
                                                                                                                                tGCGCTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCGGGATGATTCTg       <  1:202834/143‑1 (MQ=255)
                                                                                                                                tGCGCTTTTT‑CCCAGCCTTCCAGCCGAAAATGGCCCGGAATTTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCGACATCATTCTg       <  2:733825/143‑1 (MQ=255)
                                                                                                                                 gcgcTTTTTTCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCCTAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCGGGCTGGTTCTgg      >  1:130963/1‑143 (MQ=255)
                                                                                                                                     ttttttCCTAGCCTT‑CAGACTAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCGCCACTCATAAAAGTGATGCCGCTATAATGCCGCGTACTATTTGAATGCTTTCGGGATGATTCTGGTAAc  <  2:725789/143‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                          
CTCTCCTCCCTGTCGTGGAGCAGGAAGCATCGCGTAAAAACGCATTTGCAACTGTCGGCGCTTTTCCAGTATGTTGCTAAAGATTTTATGAAAAACGGCCTGCGGGCCGTTTTGTTTTGTCTGGATTTTGCGCTTTTTGCCCAGCATT‑CAGACGAAAATTGCCCGGGAATTGTGAAAAAATACGCGACAGCGCGCAATAACCGTTCTCGACTCATAAAAGTGATGCCGCTATAATGCCGCGTCCTATTTGAATGCTTTCGGGATGATTCTGGTAAC  >  NC_000913/454753‑455028

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A