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
A11 F44 I1 R1	25	56.0	2153868	90.0%	1938481	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	97.7%	113.6 / NA	44	noncoding (35/75 nt)	glnX	tRNA‑Gln
Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (16/27); total (17/27)
Fisher's exact test for biased strand distribution p-value = 3.86e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCT  >  NC_000913/696330‑696596

cGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAg                                                                                                                              >  2:509764/1‑143 (MQ=255)

   cGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAAt                                                                                                                           >  1:410757/1‑143 (MQ=255)

   cGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAAt                                                                                                                           >  1:911396/1‑143 (MQ=255)

          gACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAAGGCCGGAATCAGAATCCGGTGc                                                                                                                    >  2:465132/1‑143 (MQ=255)

          gACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACATCGGAATGCCGGAATTCGCATCCGGTGc                                                                                                                    >  1:253807/1‑143 (MQ=255)

          gACATTGAAGGAGAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGc                                                                                                                    <  1:817995/143‑1 (MQ=255)

            cATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCt                                                                                                                  <  1:509764/143‑1 (MQ=255)

              ttGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGGAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTa                                                                                                                <  1:310944/143‑1 (MQ=255)

                    gagacgACGTGTCAACAGCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGACGGAATTAGAATCCGGTGCCTTACCGCtt                                                                                                          <  2:384594/138‑1 (MQ=255)

                    gATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTAGCCGAAGTGCTCGTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCtt                                                                                                          <  1:40804/143‑1 (MQ=25)

                          aCGTGTCAACATCGCATCCGCCATTGAATCACCGCATAAAAGCAAAATGCTCGCCGAGGCGAGCTTTGTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGAt                                                                                                    <  2:63761/143‑1 (MQ=21)

                           cGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATa                                                                                                   <  2:448619/143‑1 (MQ=255)

                            ggggcaacaaCGCATTCGACATGCAAGTAACGTAGAGAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCTAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATAc                                                                                                  <  2:609707/139‑1 (MQ=21)

                              gtCAACATCGCATTCGACATTGAATGAACGCATAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATAccc                                                                                                >  2:561179/1‑143 (MQ=255)

                               tCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATAcccc                                                                                               >  2:127331/1‑143 (MQ=255)

                                 aaCATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGGATCCGGTGCCTTACCGCTTGGCGATACCCCaa                                                                                             >  2:509034/1‑143 (MQ=255)

                                   cATCGCATTCGACATTGAATGAACGCAGAAACGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACt                                                                                           >  1:254784/1‑143 (MQ=255)

                                     tCGCATTCGACATTGGTTGAACGCAGAAAAGCAAAGAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACCAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTgg                                                                                         <  1:271952/143‑1 (MQ=25)

                                      cGCATTCGACAGTGAATGAACGCAGAAAAGCAAAAAGCTCGCGGTGGCTCACAATGTTAATGTGGCTGTGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTggg                                                                                        <  1:1018014/143‑1 (MQ=18)

                                       gCATTCGACATTGAAGGAACGCAGAACAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGt                                                                                       <  2:490273/143‑1 (MQ=255)

                                        cATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTg                                                                                      <  1:187101/143‑1 (MQ=255)

                                        cATTCGACATGGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTg                                                                                      <  2:1015900/143‑1 (MQ=255)

                                               cATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGCACttgc                                                                               >  2:414973/1‑141 (MQ=255)

                                                aTTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACa                                                                              <  2:138497/143‑1 (MQ=255)

                                                  tgaatgaaCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAg                                                                            <  2:418295/143‑1 (MQ=255)

                                                    aatggtcGCAGAAAAGCAAGAAGCGCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                                                                          <  2:52416/137‑1 (MQ=21)

                                                    aatgaatgCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                                                                          <  1:176453/143‑1 (MQ=255)

                                                        aaCGCAGCAAAGCAAAAGGTTAGCCGGAGCGGGCGTTTTTAATGTGGCTGGGGTACGAGGATTCGAAGCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGc                                                                      <  2:213112/143‑1 (MQ=21)

                                                         aCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGAGTGCCCTTACAAGGTCAGCg                                                                     >  2:280861/1‑143 (MQ=255)

                                                               aaaaGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGCATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCTACTGCGTGCCCTTGCCATGCAAGCGTCtgtt                                                               >  1:410212/1‑140 (MQ=21)

                                                                 aaGCAAGAGGCTCGCCGAAGCTGGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAAGCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAAt                                                             <  2:265696/143‑1 (MQ=21)

                                                                         aGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGc                                                     <  1:1046600/143‑1 (MQ=255)

                                                                            tCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGGACGAGAATTCTAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACACGGTGACCCCCCTGAATCAATTGGCTgg                                                  >  1:504021/1‑143 (MQ=21)

                                                                                      gatcTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGa                                        <  1:478883/140‑1 (MQ=255)

                                                                                        gCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGAtt                                      <  2:410757/143‑1 (MQ=255)

                                                                                              ttggtgtgGCTGGCGTACGGGGACTCGCACCTCGGAAGGCCGGAATTAGAGTCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAAcc                                <  2:270716/139‑1 (MQ=25)

                                                                                                      gCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACGGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATg                        >  1:750126/1‑143 (MQ=255)

                                                                                                              accaGGATTCGCACCTCGGAATGCCGGAATTAGAATCCGGTGTCTAAGTGCTTTTCGATACCCACACTGGGTGGACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATc                <  1:838405/140‑1 (MQ=37)

                                                                                                                 aGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGa             >  1:511645/1‑143 (MQ=255)

                                                                                                                        gagccTCGGAATGCCGGAATTAGACTCCGGTGCCTTAGCGCTTGGCGATACGCAAACGGGGTGCACTTACAAGGTAGGCGGCTTGAATAAAGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt      <  2:770157/140‑1 (MQ=25)

                                                                                                                        gagacTCGGGATGCGGAAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGt      <  1:469567/139‑1 (MQ=37)

                                                                                                                        gAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGCACTTACAAGGTAAGCGTCTTGAATAAACTGGCTGGGGTACGAGGATTCGACCCGCGGAGAACCGGAATCCGAATCCggc      >  2:744875/1‑142 (MQ=25)

                                                                                                                         aaCCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTg     <  1:83952/143‑1 (MQ=255)

                                                                                                                            cTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTAACTGCACTTACAAGGTAAGCGAATTGAATAAATTGGCTGAGGTACGAGGATTCGAACCTAGGAATGCCGGAATCAGAATCCGGTGCCt  >  1:296303/1‑143 (MQ=37)

CGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCT  >  NC_000913/696330‑696596

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