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
A7 F28 I1 R1	252	48.5	1661298	98.8%	1641362	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,743,648	G→A	L64L (CTG→CTA)	mdtK →	multidrug efflux pump MdtK

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,743,648	0	G	A	97.3%	120.1 / ‑4.3	37	L64L (CTG→CTA)	mdtK	multidrug efflux pump MdtK
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (20/16); minor base T (0/1); total (20/17)
Fisher's exact test for biased strand distribution p-value = 4.59e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01

CTCGCGCAAATCGCCCAAACTGCGATGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTGCTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTGGTGCTGTGGAATGC  >  NC_000913/1743514‑1743782

ctcGCGCAAATCGCCCAAACTGCGATGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGActactgct                                                                                                                                   <  1:447702/140‑1 (MQ=255)

    cgcAAATCGCCCAAACTGCGATGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCa                                                                                                                               >  2:81237/1‑140 (MQ=255)

         aTCGCCCAAACTGCGATGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAAc                                                                                                                          >  1:546817/1‑140 (MQ=255)

                 aaCTGCGATGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTa                                                                                                                  >  1:583510/1‑140 (MQ=255)

                    tGCGATGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATcg                                                                                                               <  2:131633/140‑1 (MQ=255)

                     gCGATGGGTTTTGTCGATACCGTGATTGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATcgc                                                                                                              >  1:602014/1‑140 (MQ=255)

                      cGATGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATcgcg                                                                                                             <  1:39844/140‑1 (MQ=255)

                        aTGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCa                                                                                                           >  2:715822/1‑140 (MQ=255)

                        aTGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCa                                                                                                           >  2:325974/1‑140 (MQ=255)

                         tGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCaa                                                                                                          <  2:546817/140‑1 (MQ=255)

                            gTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATcgcg                                                                                                             <  2:337548/134‑1 (MQ=255)

                            gTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATcgcg                                                                                                             >  1:337548/1‑134 (MQ=255)

                             ttttGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTaa                                                                                                      <  2:73542/140‑1 (MQ=255)

                                tGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATg                                                                                                   >  2:324217/1‑140 (MQ=255)

                                     aTACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTTTCGGGACTTCTATCTGGGTTCCGGGGATCCTCTTTGGTCACGGGCTACTGCTGGCATTAAAGCCGGGTATCGCGCAAATAAATGGTTcc                                                                                              >  2:203489/1‑140 (MQ=255)

                                                        cTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTg                                                                           >  1:155246/1‑140 (MQ=255)

                                                                  aCCGACATGGCGGCGGTCGCTATCGGAACTTCTATCTGGCTTCCGGGGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGt                                                                 >  2:525043/1‑140 (MQ=255)

                                                                        aTGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTTCTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACa                                                           <  1:417004/140‑1 (MQ=255)

                                                                          ggcggcGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACa                                                           >  2:403837/1‑138 (MQ=255)

                                                                          ggcggcGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACa                                                           <  1:403837/138‑1 (MQ=255)

                                                                                 gTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTctg                                                  >  1:507189/1‑140 (MQ=255)

                                                                                 gTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTctg                                                  >  2:425847/1‑140 (MQ=255)

                                                                                                  tATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTG‑‑‑GGCAGGTTTTGTTTCCg                              >  1:527603/1‑140 (MQ=255)

                                                                                                    tCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCTGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTcc                               >  1:321664/1‑140 (MQ=255)

                                                                                                      tGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGt                             <  2:803718/140‑1 (MQ=255)

                                                                                                      tGGCTTCCGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGt                             >  1:606191/1‑140 (MQ=255)

                                                                                                        gCTTCCGGGGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTtc                           <  1:525043/140‑1 (MQ=255)

                                                                                                            ccGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCAt                       <  1:715822/140‑1 (MQ=255)

                                                                                                            ccGGCGATCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCAt                       <  2:361486/140‑1 (MQ=255)

                                                                                                                  aTCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCt                 >  1:682560/1‑140 (MQ=255)

                                                                                                                   tCCTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTg                <  1:196092/140‑1 (MQ=255)

                                                                                                                    ccTCTTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTgg               >  2:174371/1‑140 (MQ=255)

                                                                                                                      tctTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTGGTg             <  2:402470/140‑1 (MQ=255)

                                                                                                                      tctTTGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTGGTg             <  2:379056/140‑1 (MQ=255)

                                                                                                                        tttGGTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTGGTGCt           >  2:153882/1‑140 (MQ=255)

                                                                                                                           ggTCACGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCTGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTGGTGCtgtg        <  2:321664/140‑1 (MQ=255)

                                                                                                                               aCGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTGGTGCTGTGGAAt    <  2:606191/140‑1 (MQ=255)

                                                                                                                                cGGACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTGGTGCTGTGGAATg   >  2:355303/1‑140 (MQ=255)

                                                                                                                                 ggACTACTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTGGTGCTGTGGAATGc  <  1:355303/140‑1 (MQ=255)

CTCGCGCAAATCGCCCAAACTGCGATGGGTTTTGTCGATACCGTGATGGCGGGCGGCTATAGTGCCACCGACATGGCGGCGGTCGCTATCGGTACTTCTATCTGGCTTCCGGCGATCCTCTTTGGTCACGGACTGCTGCTGGCATTAACGCCGGTTATCGCGCAATTAAATGGTTCCGGTCGACGTGAGCGCATTGCGCATCAGGTGCGACAAGGTTTCTGGCTGGCAGGTTTTGTTTCCGTTCTCATTATGCTGGTGCTGTGGAATGC  >  NC_000913/1743514‑1743782

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A