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 F23 I0 R1	55	48.2	1840046	90.8%	1670761	142.8

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%	106.2 / ‑6.7	35	noncoding (35/75 nt)	glnX	tRNA‑Gln
Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (20/14); total (21/14)
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.

CGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGG  >  NC_000913/696330‑696606

cGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGACAAGCCAAGAGCTCGCCGAAGCGAGCTTTTTTAATGGGGCTGGGGTACGAGGATTCGAACCTCGGAACGCCGGCATTAg                                                                                                                                        >  2:651718/1‑143 (MQ=255)

    gcctCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATc                                                                                                                                    <  1:757411/140‑1 (MQ=255)

    gCATCCAACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGTAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATc                                                                                                                                    <  2:321890/143‑1 (MQ=255)

         cGACATTGACGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTg                                                                                                                               <  1:492041/143‑1 (MQ=255)

          gACATTTAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGc                                                                                                                              <  2:490807/143‑1 (MQ=255)

          gACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGCTTCGAACCTCGGAATGCCGGAATTCGCATCCGGTGc                                                                                                                              >  1:266150/1‑143 (MQ=255)

          gACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGc                                                                                                                              >  1:320346/1‑143 (MQ=255)

                    gATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAAGCTGGGAACGCCGGAATTAGAATCCGGGGCCTTACCGCtt                                                                                                                    >  2:402316/1‑143 (MQ=38)

                     aTAAGCCGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTg                                                                                                                   <  1:73280/143‑1 (MQ=255)

                     aTAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTg                                                                                                                   >  1:392553/1‑143 (MQ=255)

                               tCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGACTCAGAATCCGGTGCCTTACCGCTTGGCGATAcccc                                                                                                         >  2:336727/1‑143 (MQ=255)

                                 aaCATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCaa                                                                                                       >  1:500029/1‑143 (MQ=255)

                                  aCATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAAc                                                                                                      >  1:156832/1‑143 (MQ=255)

                                    aTCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCAAAccg                                                                                                    >  1:682804/1‑141 (MQ=255)

                                     tCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTgg                                                                                                   >  1:496567/1‑143 (MQ=255)

                                          ttCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCa                                                                                              >  2:152139/1‑143 (MQ=255)

                                            cGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTAAGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGAGTGCACt                                                                                            >  2:672150/1‑143 (MQ=255)

                                                  tgaatgaaCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAg                                                                                      >  1:227606/1‑143 (MQ=255)

                                                   gaatgaaCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAgg                                                                                     >  1:909540/1‑143 (MQ=255)

                                                    aatgaaCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGt                                                                                    >  1:152414/1‑143 (MQ=255)

                                                              gAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTg                                                                          >  1:16995/1‑143 (MQ=255)

                                                                       aaaGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTg                                                                 <  1:484624/143‑1 (MQ=255)

                                                                          gCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCt                                                              <  1:862197/143‑1 (MQ=255)

                                                                              ggcGAAGCGAGTTTCTGTAATGTGGCTGGGGTACGAGGATTCGCACCTCGGAATGCCGGAATTAGAATCCTGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTgggg                                                          <  2:73710/141‑1 (MQ=25)

                                                                                    gCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAg                                                    <  1:152139/143‑1 (MQ=255)

                                                                                        gCTTTTTTAAGGTGGCTGGGGAACCAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTCCCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGAtt                                                <  1:463261/143‑1 (MQ=25)

                                                                                        gCTTTTTGAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGAtt                                                <  1:903327/143‑1 (MQ=255)

                                                                                        gCTTTTCTAACTTGCCTGCGGTACGAGGATACGAACCTCGGAATGCCGGAATTAGAATCCGGCGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAATGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGAtt                                                <  1:463303/143‑1 (MQ=21)

                                                                                        gCTTTGTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGAtt                                                <  1:261303/143‑1 (MQ=255)

                                                                                          ttttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTGACCGCTTGGCGCTACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGCCTGCGGTCCGAGGATCCg                                              >  1:716830/1‑143 (MQ=21)

                                                                                            ttttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACGGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGaa                                            >  1:577979/1‑143 (MQ=255)

                                                                                                                            cTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCCATTGGCACTACCCCAACGGGGTGCACTTACAGGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGGGTGCCGGGGTCAGAATCCGGTGTCt            >  1:388310/1‑143 (MQ=37)

                                                                                                                                 aaTGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTAGAATAAATTGGCTGGGGTACGAGGATTCGAAACAAGGAATGCCGGAATCAGAAACCCGTACAATACCg       >  2:43059/1‑143 (MQ=37)

                                                                                                                                      ccgAATTAGAAGCCGGTTCCTTACCTCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTgg  <  1:884394/141‑1 (MQ=255)

                                                                                                                                      cGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTTGCTGTGGTACGAGGATTCGCACCTCGGAATGCCGGAAGCCGGATCCGGTGCCTTACCGCTTgg  >  1:279846/1‑143 (MQ=37)

CGTCGCATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGG  >  NC_000913/696330‑696606

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A