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 I0 R1	92	47.7	1834152	89.2%	1636063	142.7

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	99.2%	100.9 / ‑6.9	38	noncoding (35/75 nt)	glnX	tRNA‑Gln
Reads supporting (aligned to +/- strand): ref base C (1/0); major base T (19/16); minor base G (1/1); total (21/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
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.

ATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGC  >  NC_000913/696336‑696607

agccGACATTGATGGATAAGACTGGTCAACATCGCATTCGACTTTGTGTTCCCGTAAAAAAGCACAAAGCTCGCCGAAGCGAGCTTTTTTAATGTTGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCg                                                                                                                                   <  2:889505/141‑1 (MQ=25)

   cGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTg                                                                                                                                >  1:741859/1‑143 (MQ=255)

    gACATTGAAGGATAAGACGCGTCAACATCGCATTCGACATCGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGCGCTTTTTTAATGTGGCTGGGGCACGAGGATTCCAACCTCGGAATGCCGGAATTAGAATCCGGTGc                                                                                                                               >  2:364866/1‑143 (MQ=38)

          gAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAAACTCGGAATGCTGGAATGAGAATACGGTGCCTTAcc                                                                                                                         >  1:161543/1‑143 (MQ=255)

                tatttcGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTgg                                                                                                                   <  1:153178/138‑1 (MQ=255)

                    aCGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGAt                                                                                                               <  2:779285/143‑1 (MQ=255)

                     cGTGTCAACATCGCATTAGACATGGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATa                                                                                                              <  1:360443/143‑1 (MQ=255)

                        gtCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATAccc                                                                                                           <  1:635076/143‑1 (MQ=255)

                           aaCATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATCccccga                                                                                                        >  2:707563/1‑141 (MQ=255)

                               tCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTgg                                                                                                    >  1:554658/1‑143 (MQ=255)

                               tCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTATTTAATGTGGCTGGGGTAGGAGGATTCGAAGCTCGGAATGCCGGAATTAGAATCCGGAGCCGTACCGCTGGGCGATACCCCAACAgg                                                                                                    >  2:504743/1‑143 (MQ=255)

                                     tCGACACTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTGGTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCAc                                                                                              <  1:551249/143‑1 (MQ=255)

                                          aTTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGCGCACTTACa                                                                                         >  2:21804/1‑143 (MQ=255)

                                                   aCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCg                                                                                >  1:827874/1‑143 (MQ=255)

                                                   aCGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTGACCGCTTGGCGATACCCCAACAGGGTGCACTTGCAAGGTCAggg                                                                                >  2:333205/1‑141 (MQ=255)

                                                     gCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGGACGCGTc                                                                              >  1:814928/1‑143 (MQ=255)

                                                      cAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACTCCAACTGGGTGCACTTACAAGGTAAGCGTCt                                                                             >  1:864109/1‑143 (MQ=255)

                                                       aGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCtt                                                                            <  2:710349/143‑1 (MQ=255)

                                                       aGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGCACTTACAGGGTAAGCGGCtt                                                                            >  2:696584/1‑143 (MQ=255)

                                                              cAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCGACTGGGTGCACTTACAAGGTAAGCGTCTTGAATaaa                                                                     <  1:589970/143‑1 (MQ=255)

                                                               aaaaaGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTCAGCGCCTTGACTAAAt                                                                    >  2:14569/1‑143 (MQ=255)

                                                               aaaaaGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAAt                                                                    >  1:175836/1‑143 (MQ=255)

                                                                aaaaGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGTACTTAAAAGGTAAGCAGCTTGAATAAAtt                                                                   >  2:200677/1‑143 (MQ=21)

                                                                      tCGCCGAAGCGAGCTATTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTAGGTGGACTTGCATGGTAAGCACCTAGAATACATAAGCTgg                                                             >  2:769098/1‑143 (MQ=18)

                                                                       cGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTggg                                                            <  1:681531/143‑1 (MQ=255)

                                                                        gCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCGCTTACAAGGTAAGCGTCTTGAATAAATTGGCGgggg                                                           >  1:669979/1‑143 (MQ=255)

                                                                                        ttAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAAcc                                           <  1:173350/143‑1 (MQ=255)

                                                                                           aggtgGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCg                                        <  1:272798/141‑1 (MQ=255)

                                                                                                   ggggTACGGGGCTTCGCGCCACGGAAGGCCCGAATTAGAAGCCGGTGCCTTCCAGCTTGGCGATACGCCGACTGGGTGCACGTACAAGGTAAGCGTCTTGAATAAAGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCg                                <  2:865816/143‑1 (MQ=25)

                                                                                                      acaCGATGATTCGAACCTCGGAATGTGTGAATTAGTATCCGGTGCCTTACCGCTTGGCGATACCCGAACTGGGTGCACGTACAAGGTAAGCGGCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGaa                             <  1:114827/141‑1 (MQ=37)

                                                                                                       tACGCGGATTCGAGCCTCGGAAGGACGGAATGAGAATCCGGCGCCTTAGCGCTTGGCGATACCCCAACTGGGTGCACGTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAAt                            <  2:741859/143‑1 (MQ=37)

                                                                                                            ggATTCGAACCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGGACTTGCAGGGTAAGCGTCTTGAATAAATTTGCGGGGGTACGAGGGTTGGAGCCTCGGGATGCTGGGAGCAGaa                       >  1:231152/1‑143 (MQ=21)

                                                                                                                 cgcaCCTCGGAATGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCgg                  <  1:361761/140‑1 (MQ=255)

                                                                                                                         ggAATGCCGGAATTAGACTCCGGTGCATTACTGGTGTTCGACACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTAc          <  1:164639/143‑1 (MQ=25)

                                                                                                                           aaTGCCGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACAGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATAGGCTGGGGTACGAGGATACGAACCTCGGAAAGCCGGAAACCACAGCCGGAGCCTTACCg        >  2:481177/1‑143 (MQ=25)

                                                                                                                                cGGAATTAGAATCCGGTGCTTTTCCTCTTGGCGATACCCCGAGTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAAGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTgg   <  1:731444/143‑1 (MQ=25)

                                                                                                                                cGGAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGACTAAATTGGCTGGGGTACGAGGATTCGAACCGCGGAATGCCGGAATCAGAATCCGGATCCTTACCGCGTgg   >  2:270484/1‑143 (MQ=37)

                                                                                                                                 ggAATTAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGTGTTCCGAGGTTTCGATCCTCTGAATTCCGCTATCAGTATACGGTGCCTTACCGCATgga  >  1:63633/1‑142 (MQ=25)

ATCCGACATTGAAGGATAAGACGTGTCAACATCGCATTCGACATTGAATGAACGCAGAAAAGCAAAAAGCTCGCCGAAGCGAGCTTTTTTAATGTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGCGATACCCCAACTGGGTGCACTTACAAGGTAAGCGTCTTGAATAAATTGGCTGGGGTACGAGGATTCGAACCTCGGAATGCCGGAATCAGAATCCGGTGCCTTACCGCTTGGC  >  NC_000913/696336‑696607

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