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 F61 I1 R1	22	65.1	2541758	91.4%	2323166	141.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	696,470	C→T	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	97.9%	140.9 / ‑4.5	48	noncoding (35/75 nt)	glnX	tRNA‑Gln
Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (20/27); total (21/27)
Fisher's exact test for biased strand distribution p-value = 4.38e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.76e-01

CGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGC  >  NC_000913/696333‑696607

cGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAAt                                                                                                                                      >  2:581713/1‑143 (MQ=255)

           ttGAAGGATAAGGCGTGGCAACAGCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTa                                                                                                                           <  2:1151881/143‑1 (MQ=255)

             gAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAACTCGCCGAAGCGAGCTTTTTTAATATGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTAcc                                                                                                                         >  2:631401/1‑143 (MQ=255)

                 gATAAGCCGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCtt                                                                                                                     <  2:202311/143‑1 (MQ=255)

                 gATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCtt                                                                                                                     >  1:113345/1‑143 (MQ=255)

                   tAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATGCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTgg                                                                                                                   <  2:694828/143‑1 (MQ=255)

                   caaGACGTGTCAACAGCGCATTCGACATAGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTgg                                                                                                                   <  2:749697/142‑1 (MQ=255)

                      gACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGa                                                                                                                >  1:324378/1‑143 (MQ=255)

                         gtgtCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATAc                                                                                                             <  2:1182263/143‑1 (MQ=255)

                         gtgtCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTCGCGATAc                                                                                                             >  2:294844/1‑143 (MQ=255)

                          tgtCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATAcc                                                                                                            <  2:373916/143‑1 (MQ=255)

                              aaCATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATACGGTGCCTTACCGCTTGGCGATACCCCaa                                                                                                        >  1:230241/1‑143 (MQ=255)

                                cATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACt                                                                                                      <  1:448194/143‑1 (MQ=255)

                                 aTCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGGCTTAGACACCGGTGCCTTACCGCTTGGCGATACGCCAACTg                                                                                                     >  2:261957/1‑143 (MQ=37)

                                  tCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCGTGGCGGTACCCCACCTgg                                                                                                    >  1:935247/1‑143 (MQ=255)

                                   cGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTAGCGATACCCCAACTggg                                                                                                   >  1:949877/1‑143 (MQ=255)

                                    gcgtgcGACATTGTATGGACATAGAGGATGAAAGAGCTGGCCGGAGCGAGCTGTGTTAATGTGGCTGGGGTGATGGGCTTCGAGTCTCGGAATGGCGGAATTAGAATCCGGTGCCTTACCGTTTGGCGATACCCCAACTGGGt                                                                                                  <  2:191786/138‑1 (MQ=255)

                                               ggcattaaCGCAGAAAAGCAAAAAGCTCGCCGAAGTGAGCTTGTTTAATGTGGCTGGGGTACGAGGATTCGACCCTCGGAATGCCGGAATTAGACTCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAg                                                                                       <  1:1228211/137‑1 (MQ=21)

                                                 aatgaaCGCAGAAAAGCAAAGAGGTCGCCGGAGCGAGCTTTTTTAATGTGGCTGGGGTGCGGGGGTTCGAGCCTCGGAATGCCGGAATTAGAATCCGGTGCCTTTGCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                                                                                     <  2:324378/143‑1 (MQ=25)

                                                     agagCAAAAAAGAAAAAAGCGAGCGGAAGCGAGCTTTTTGAACGTGGCTGGGGTACGAGGATTCGAACATCGGAATGCCAGAATTAGAAGCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGc                                                                                 <  2:889103/140‑1 (MQ=18)

                                                        gCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGAGTGGCAGTGCAAGGTAAGCGTc                                                                              >  2:1255814/1‑143 (MQ=21)

                                                          aGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCtt                                                                            <  1:1229784/143‑1 (MQ=255)

                                                                gCAAAAAGCGCGGCGAAGCGAGCGTTTTTAAGGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATaa                                                                      <  2:94040/143‑1 (MQ=21)

                                                                 cAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTCAGCGTCTTGGATaaa                                                                     >  1:370732/1‑143 (MQ=255)

                                                                   aaaaGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAAtt                                                                   <  1:277137/143‑1 (MQ=255)

                                                                    aaaGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTg                                                                  <  1:882399/143‑1 (MQ=255)

                                                                         tCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTgg                                                             >  1:278170/1‑143 (MQ=255)

                                                                           gCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGCATTAGCATCCGGTGCCTTACCGCTTGGCGATCCCCCAACTGGGTGCACTTACAAGGTACGCGTCTTGAATACATTGGCTgggg                                                           >  1:900094/1‑143 (MQ=25)

                                                                            ccGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACGTACAAGGTAGGCGTCGCGAATACATTGGCTGGGGt                                                          >  2:425737/1‑143 (MQ=21)

                                                                                aGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGa                                                      >  1:257059/1‑143 (MQ=255)

                                                                                     gCTTTTTTAATGTGGCTGGGGGACGAGGCTCAGCACCGCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGAtt                                                 <  2:556611/143‑1 (MQ=37)

                                                                                      cTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTTGCTGGGGTACGAGGATTc                                                >  1:410310/1‑143 (MQ=255)

                                                                                          tttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAAc                                            <  1:462642/143‑1 (MQ=255)

                                                                                                 tgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGaa                                     >  1:675749/1‑143 (MQ=255)

                                                                                                     tGGGGTACGTGGCTTCCAACCTCGGAACGCCGGAATTCGACCCCGTTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTTGAACCTCGGAATGcc                                 <  2:662996/143‑1 (MQ=37)

                                                                                                     tGGGGTACGAGGATGCGAACCGCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGcc                                 <  1:1181280/143‑1 (MQ=255)

                                                                                                      ggggTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCg                                <  1:261957/143‑1 (MQ=255)

                                                                                                        ggTACGAGGATTCGAGCCTGGGAATGCCGGAATTAGACTCCGGTGCATTACCGCTTGGCGATACCCCGACTGGGTGCACGTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGa                              <  2:352932/143‑1 (MQ=38)

                                                                                                          aaCGAGGATTCGACCCCCGAAATGCAGGCCTTCGAACCCGCTGTCTCACCGCTTGGCGCTACCCCAACTGGGAGCACGTACAAGGTAGGCGGCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAAt                            <  2:370732/142‑1 (MQ=21)

                                                                                                            cGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGGTTCGAACCTCGGAATGCCGGAATCa                          <  1:425737/143‑1 (MQ=255)

                                                                                                             gAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAg                         <  1:1127294/143‑1 (MQ=255)

                                                                                                                  ttCGAACCTCGGAATGACGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATcc                    <  1:902148/143‑1 (MQ=255)

                                                                                                                   tCGAACCTCGGAACGCCGGAAGTAGAGCCCGGTGCCCTCCCGCGTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCg                   <  1:738353/143‑1 (MQ=37)

                                                                                                                          tCGGAATGCCGGAATTAGAATTCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTTCAAGGTAAGCGTGTTTAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCtt            <  1:1079276/143‑1 (MQ=37)

                                                                                                                                   cGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGCATCCGGTGCCTTACCGCTTgg   >  1:707557/1‑143 (MQ=255)

                                                                                                                                   cGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGACTCCGGTGCCTTACCGCTTgg   >  1:148313/1‑143 (MQ=255)

                                                                                                                                   cGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTgg   >  1:1026426/1‑143 (MQ=255)

                                                                                                                                    ggAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGTAATCAAAATCCGGTGCATTACCGCTTCGc  >  2:53883/1‑143 (MQ=37)

CGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGC  >  NC_000913/696333‑696607

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A