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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,910,474	T→C	S67P (TCC→CCC)	yebQ →	putative transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,910,474	0	T	C	97.5%	139.9 / ‑6.3	40	S67P (TCC→CCC)	yebQ	putative transporter
Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (19/20); minor base G (1/0); total (20/20)
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

TGTGATTGGTATTTCGATGGCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCTCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGCAAATGCTCACCCTTGCGCGTG  >  NC_000913/1910338‑1910609

tgtgATTGGTATTTCGATGGCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATcccc                                                                                                                                       >  2:890756/1‑139 (MQ=255)

tgtgATTGGTATTTCGATGGCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATcccc                                                                                                                                       >  2:426961/1‑139 (MQ=255)

tgtgATTGGTATTTCGATGGCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATcccc                                                                                                                                       >  2:324315/1‑139 (MQ=255)

  tgATTGGTATTTCGATGGCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCt                                                                                                                                     >  1:59847/1‑139 (MQ=255)

            ttCGATGGCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCtcgttt                                                                                                                           <  1:143358/139‑1 (MQ=255)

                  ggCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCtcgttttcgttt                                                                                                                     >  2:13724/1‑139 (MQ=255)

                   gCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTc                                                                                                                    >  1:150986/1‑139 (MQ=255)

                   gCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTc                                                                                                                    >  2:802450/1‑139 (MQ=255)

                   gCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTc                                                                                                                    <  1:324315/139‑1 (MQ=255)

                                 cgcAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCACTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGttt                                                                                                      >  2:523009/1‑139 (MQ=255)

                                       cGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTAt                                                                                                <  1:890756/139‑1 (MQ=255)

                                           aaCGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGAc                                                                                            <  2:114098/139‑1 (MQ=255)

                                           aaCGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGAc                                                                                            <  2:563779/139‑1 (MQ=255)

                                             cGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCg                                                                                                              <  1:306787/119‑1 (MQ=255)

                                             cGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCg                                                                                                              >  2:306787/1‑119 (MQ=255)

                                             cGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGt                                                                                          <  1:426961/139‑1 (MQ=255)

                                             cGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCACTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGt                                                                                          <  1:523009/139‑1 (MQ=255)

                                                                 ccACGGACCTCCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTACCAAATCGCCATTGTCATCGCCCTGCTCTCGTTTTCGTTTCTGGTCGATATGTTTTGCTATCGACGTATTTATAAATGCGGTCTGGt                                                                      >  2:26199/1‑139 (MQ=255)

                                                                      gACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGt                                                                           >  1:602821/1‑129 (MQ=255)

                                                                      gACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGt                                                                           <  2:602821/129‑1 (MQ=255)

                                                                           tCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCtg                                                            <  2:59847/139‑1 (MQ=255)

                                                                             aTGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCtgtt                                                          >  1:958803/1‑139 (MQ=255)

                                                                               gCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCtgttgt                                                        <  2:312097/139‑1 (MQ=255)

                                                                                ccACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCtgtt                                                          >  2:919242/1‑136 (MQ=255)

                                                                                ccACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCtgtt                                                          <  1:919242/136‑1 (MQ=255)

                                                                                 cACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCt                                                      >  1:341190/1‑139 (MQ=255)

                                                                                  aCGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCtt                                                     <  1:741633/139‑1 (MQ=255)

                                                                                   cGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTc                                                    >  1:578891/1‑139 (MQ=255)

                                                                                   cGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATCTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTc                                                    >  1:671777/1‑139 (MQ=255)

                                                                                            gTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTg                                           <  2:341190/139‑1 (MQ=255)

                                                                                                  tCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCt                                     >  1:460268/1‑139 (MQ=255)

                                                                                                            gAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCtgttgt                                                        >  2:675591/1‑110 (MQ=255)

                                                                                                            gAACGCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCtgttgt                                                        <  1:675591/110‑1 (MQ=255)

                                                                                                                gCCTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGc                       >  1:338979/1‑139 (MQ=255)

                                                                                                                 ccTATCAAATCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGCa                      <  2:460268/139‑1 (MQ=255)

                                                                                                                         aTCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGCAAATGCTCa              >  2:452439/1‑139 (MQ=255)

                                                                                                                          tCGCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGCAAATGCTCAc             >  2:515801/1‑139 (MQ=255)

                                                                                                                            gCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGCa                      <  1:584215/128‑1 (MQ=255)

                                                                                                                            gCCATTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGCa                      >  2:584215/1‑128 (MQ=255)

                                                                                                                               aTTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTgcg                                         >  1:821510/1‑106 (MQ=255)

                                                                                                                               aTTGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTgcg                                         <  2:821510/106‑1 (MQ=255)

                                                                                                                                ttGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGCAAATGCTCACCCTTgc       <  1:13724/139‑1 (MQ=255)

                                                                                                                                ttGTCATCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTCTTCTGCGCCCTTTCTGATTCGCTGCAAATGCTCACCCTTgc       <  1:26199/139‑1 (MQ=255)

                                                                                                                                     aTCCCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGCAAATGCTCACCCTTGCGCgtg  <  2:150986/139‑1 (MQ=255)

TGTGATTGGTATTTCGATGGCCGTCCTTGACGGCGCAATCGCCAACGTCGCCCTGCCAACAATCGCCACGGACCTTCATGCCACGCCAGCCAGTTCCATCTGGGTAGTGAACGCCTATCAAATCGCCATTGTCATCTCCCTGCTCTCGTTTTCGTTTCTGGGCGATATGTTTGGCTATCGACGTATTTATAAATGCGGTCTGGTCGTTTTTCTGTTGTCTTCACTGTTCTGCGCCCTTTCTGATTCGCTGCAAATGCTCACCCTTGCGCGTG  >  NC_000913/1910338‑1910609

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A