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 F21 I1 R1	19	60.0	2284426	90.7%	2071974	142.3

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	90.0%	101.0 / ‑2.3	41	noncoding (35/75 nt)	glnX	tRNA‑Gln
Reads supporting (aligned to +/- strand): ref base C (3/1); new base T (18/18); total (22/19)
Fisher's exact test for biased strand distribution p-value = 6.07e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGG  >  NC_000913/696332‑696606

tCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTAGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGAGTCGAAACTCGGAATGCCGGACTCAGag                                                                                                                                      >  2:455730/1‑142 (MQ=255)

   cATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGCGGATGGGGTACGAGGATTCGACCCGCGGAATGCCGGAATTAGCATcc                                                                                                                                   >  2:291771/1‑143 (MQ=255)

      cggagcttGAAGGGTAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAATGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGt                                                                                                                                <  2:926746/137‑1 (MQ=38)

        gccagtGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGc                                                                                                                              <  1:632289/138‑1 (MQ=255)

           aTTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCtt                                                                                                                           >  1:901878/1‑143 (MQ=255)

                 ggATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAACAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAACCCGGTGCCTTACCGCt                                                                                                                     >  2:383869/1‑143 (MQ=255)

                  gATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGCATCAGTATGCTGTGCCTTACCGCtt                                                                                                                    >  2:445200/1‑143 (MQ=255)

                  gATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCCGTGCCTTACCGCtt                                                                                                                    >  1:794835/1‑143 (MQ=255)

                          gtgtCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTAGAACCTCGGAATGCCGGAATTAGAATCAGGTGCCTTACCGCTTGGCGATAc                                                                                                            >  2:740272/1‑143 (MQ=255)

                              cAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCa                                                                                                        <  1:139611/143‑1 (MQ=255)

                                aCATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAAc                                                                                                      >  1:1000050/1‑143 (MQ=255)

                                   tCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGACTGCCGGAATTAGAATCCGGTGCCTTACCGCCTGGCGATACCCCACCTgg                                                                                                   >  1:1127888/1‑143 (MQ=255)

                                   tCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTgg                                                                                                   >  1:1127882/1‑143 (MQ=255)

                                   tCGCAGTCGACAGGGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGAGTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTgg                                                                                                   <  2:588349/143‑1 (MQ=25)

                                        ttCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCa                                                                                              <  1:979795/143‑1 (MQ=255)

                                           gACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACtt                                                                                           <  2:878396/143‑1 (MQ=255)

                                              aTTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACa                                                                                        >  2:926598/1‑143 (MQ=255)

                                                   atgaaCGCAGAAAAGCAAAAAGCTCGCCGAGTCGAGCTTTTTTAATGTGGATGAGCAACGATGGTTCGAACATGTGTATGCCGGGATTAGCATCCGGTGCCTTACCGCTTGGGGAGACCCGAACCGGGGGCACGTTCAAgggc                                                                                   >  2:808622/1‑141 (MQ=255)

                                                            gagaaGCAAAAAGCTCGCGGAAGGGAGCTGTTTGAATGTGGCGGGGGTACGAGGATTCGAACCGCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTg                                                                          <  2:91291/140‑1 (MQ=21)

                                                               aaGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAAt                                                                       <  1:885608/143‑1 (MQ=255)

                                                                  cAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATaaa                                                                    <  1:181731/143‑1 (MQ=255)

                                                                   aaagaGCTTGGCGATGCGAGCTTTTGTAGTGGGGCTGGGGTACGAGTATTCGAACCTCGGAATGGCGTAATTAGAATCCGGTGCCTTACCGCTTGGCTATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAAt                                                                   <  2:17010/143‑1 (MQ=21)

                                                                      aaGCTCGCCGAAGCGAGCTTTTTTAATGTGGTTGCGATACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGGTAGCCCAACGAGGTGCAGTTACAAGGGGAGCGGCTTGAGTAAATTgg                                                                >  2:1116706/1‑143 (MQ=21)

                                                                       aggtCGCCACAGCGAGCTTTTTTAATGGGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGc                                                               <  2:1072966/140‑1 (MQ=25)

                                                                         ctaggcGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTg                                                             <  1:1060110/138‑1 (MQ=255)

                                                                            gCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGCCTAAATTGGCTgggg                                                          >  1:198800/1‑143 (MQ=255)

                                                                             ccGAAGCGAGCTTTTTTAGTGTGGCTGGGGTACGAGGATTCGAGCCTCGGAATGCCGGAATGAGAATCCGGTGCCTTACCGCTTGGCGATACCCAAACTGGGTGCACTTACAAGGCAAGCGGCTTCACTACATCGGCCGCGGt                                                         >  1:795816/1‑143 (MQ=18)

                                                                                aaGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACg                                                      <  2:673165/143‑1 (MQ=255)

                                                                                 ggCGAGCTTTTCTAACGTGGCGGGGGTACGAGGAGTCGAACCTCGGAATGCCGGACTTAGAATCCGGTGCGTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGa                                                     <  1:618895/142‑1 (MQ=25)

                                                                                    gAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTGCGCggc                                                  >  1:181136/1‑142 (MQ=255)

                                                                                      gCTTGTTTAATGTGGCTGGGGTACGAGGATGCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGAtt                                                <  1:795838/143‑1 (MQ=255)

                                                                                        ttttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATATATTGGCTGGGGTACGAGGAttgg                                              >  1:29729/1‑141 (MQ=255)

                                                                                         tttttAACGTGGCTGGGGTACGCGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGa                                             <  1:444644/143‑1 (MQ=255)

                                                                                          ttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGGCTTGAATAAATTGGCTGGGGTACGAGGATTCGaa                                            >  1:404541/1‑143 (MQ=255)

                                                                                                      ggggcTACGAGGATTCCAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGcc                                <  1:497879/142‑1 (MQ=255)

                                                                                                              gAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTCAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAGTGCCGGAATCAg                        >  1:6281/1‑143 (MQ=255)

                                                                                                                     cGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCgg                 <  1:232626/143‑1 (MQ=255)

                                                                                                                        aCCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGc              <  1:1116706/143‑1 (MQ=255)

                                                                                                                           tCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGGACTTACACGGTATGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGGATGCCGGAATCAGCATCCgggtccgt           >  2:1072990/1‑137 (MQ=37)

                                                                                                                                    cGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGACCCTCGGCGTGACGGGATCAGAATCCGGTGCCTTACCGCTTgg  >  1:769297/1‑143 (MQ=37)

                                                                                                                                    cGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTgg  >  1:1127314/1‑143 (MQ=255)

TCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGG  >  NC_000913/696332‑696606

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