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
A17 F104 I0 R1	40	45.6	1767846	90.1%	1592829	142.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	696,470	C→T	100%	noncoding (35/75 nt)	glnX ←	tRNA‑Gln

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	696,470	0	C	T	100.0%	91.2 / NA	34	noncoding (35/75 nt)	glnX	tRNA‑Gln
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (17/17); total (17/17)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCG  >  NC_000913/696332‑696601

tCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGaa                                                                                                                                 >  1:97355/1‑143 (MQ=255)

  gCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCCGAAAAGCCAAAAGCTCGCCGAAGCGAGCCTTTTTAATGTGGCTGGGGTACGCGGATTCGAACCCCCGCATGCCGGAATTAGAATc                                                                                                                               >  2:139347/1‑143 (MQ=255)

    aTCCGACACTGGAGGATAAGAGGTGTGCAGAGCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCGCGGCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGCATTCGAACCTCGGAATGCCGGAATTAGAATCCg                                                                                                                             <  2:512238/143‑1 (MQ=37)

          cATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCt                                                                                                                       <  2:508522/143‑1 (MQ=255)

                    caaGGCGTGTCACCATCGCATACGACAGTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTGTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTgg                                                                                                             <  1:210498/142‑1 (MQ=25)

                                        ttCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCa                                                                                         >  1:168846/1‑143 (MQ=255)

                                         tctaCATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCAc                                                                                        <  2:544619/140‑1 (MQ=255)

                                          cGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCACCAGAGTGctct                                                                                       >  2:833105/1‑143 (MQ=25)

                                            agcttGCATGAACGCAGAAGAGCGAGAAACTTGCCGAGGCCAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGCACCTCGGAATGGCGGACTTAGTATCCGGCGCCTTACCCTTTAGCGTTACCCCAACTGGGTGCACTTa                                                                                     <  2:394880/140‑1 (MQ=16)

                                              aTTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACa                                                                                   >  2:605727/1‑143 (MQ=255)

                                                tgaatgaaCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACttgccag                                                                                 >  2:452580/1‑138 (MQ=255)

                                                  aatgaaCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                                                                               <  1:353579/143‑1 (MQ=255)

                                                  aatgaaCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGACGATTCGAACCCCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTACGTGCACTTCCACggc                                                                               >  2:14311/1‑142 (MQ=21)

                                                        cGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATCCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGt                                                                         <  1:209208/143‑1 (MQ=255)

                                                         gCAGAAAAGCGAGAGGCTCGCCGAAGCGAGTTTTTTTAATGTGGCTGGGGAACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTc                                                                        <  2:73775/143‑1 (MQ=21)

                                                         gCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCAAACTGGGTGCACTTAAAGGGTAAGCGta                                                                        >  2:506833/1‑142 (MQ=255)

                                                           aGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCtt                                                                      <  2:718604/143‑1 (MQ=255)

                                                             aaaaGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATCCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGGTACCCCAACTGGGTGCACTTACAAGGTAACCGACTGGa                                                                    >  2:862817/1‑143 (MQ=25)

                                                                   aaaaaGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAAt                                                              <  2:296385/143‑1 (MQ=255)

                                                                          tCGCGGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGCATGCCGGAATTAGAATCCGGTGCCTTCCCGTTTGGCGATACCCCCACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTgg                                                       <  1:861596/143‑1 (MQ=25)

                                                                            gCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCACTTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTgggg                                                     >  1:402100/1‑143 (MQ=255)

                                                                               gAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTAc                                                  <  1:605727/143‑1 (MQ=255)

                                                                                aaGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGGACg                                                 >  1:864417/1‑143 (MQ=255)

                                                                                 aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGCTCTTGCAAGGTCAGAGTCTATAATAAATTGGCCGGCGTTCGa                                                >  2:594458/1‑143 (MQ=18)

                                                                                    gAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACGGGTTGGACTTACAAGGGCAGAGCCTTGACGAAATAGGCAGGGATACGAGGa                                             >  2:127682/1‑143 (MQ=17)

                                                                                      gCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATACATTGGCTGGGGTGCGAGGAtc                                           >  1:727602/1‑142 (MQ=255)

                                                                                      gCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGAGTGCACTTACATGTTCCGCGCCTAGAATAAATATGCTAGGGTTCTAgggtg                                           >  2:566289/1‑140 (MQ=17)

                                                                                        ttttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCg                                         <  1:676844/143‑1 (MQ=255)

                                                                                         ttggtAATGTGGCTGGGGTGCGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGa                                        <  2:161221/139‑1 (MQ=255)

                                                                                          ttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGaa                                       <  1:610599/143‑1 (MQ=255)

                                                                                          ttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGaa                                       >  1:772032/1‑143 (MQ=255)

                                                                                                        gggTACGAGGAGTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCgg                         <  1:574469/143‑1 (MQ=255)

                                                                                                                 gATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGCACTTGCAAGGGCCGCGCCTAGACGAAACTGGCTGGGGTACGAGGCTACGACCCGCGGAATGCCGGTATCAGact                >  2:554521/1‑141 (MQ=18)

                                                                                                                               aaTGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCg  <  1:447626/143‑1 (MQ=255)

TCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCG  >  NC_000913/696332‑696601

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