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
A1 F52 I1 R1	32	41.0	931009	90.8%	845356	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	1,222,687	G→A	G298D (GGT→GAT)	rpoZ →	bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate‑‑cysteine ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,222,687	0	G	A	97.8%	143.4 / ‑3.8	45	G298D (GGT→GAT)	rpoZ	bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate‑‑cysteine ligase
Reads supporting (aligned to +/- strand): ref base G (1/0); new base A (19/25); total (20/25)
Fisher's exact test for biased strand distribution p-value = 4.44e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.43e-01

TCATGTTCAAAGTGCTGAAGAAATGTTTGAACAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGGTGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTGAAAATTATGCACAACAAAAATTACGCAAG  >  CP000730/1222550‑1222823

gcATGTCTAAAGCGCTGAAGAAATGTCTGAACAAGTGACAAGCTGATTTGACGATCAAGACATTGTTGTCAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGAtgatga                                                                                                                                       <  1:887140/140‑1 (MQ=255)

 cATGTTCAAAGTGCTGAAGAAATGTTTGAACAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGgatgatgat                                                                                                                                      >  1:905012/1‑141 (MQ=255)

      tCAAAGTGCTGAAGAAATGTTTGAACAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTc                                                                                                                                 <  1:755459/141‑1 (MQ=255)

       cAAAGTGCTGAAGAAATGTTTGAACAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCa                                                                                                                                <  1:897795/141‑1 (MQ=255)

         aaGTGCTGAAGAAATGTTTGAACAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGt                                                                                                                              >  1:254136/1‑141 (MQ=255)

             gCTGAAGAAATGTTTGAACAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCt                                                                                                                          <  1:108893/141‑1 (MQ=255)

             gCTGAAGAAATGTTTGAACAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCt                                                                                                                          <  1:852839/141‑1 (MQ=255)

              cTGAAGAAATGTTTGAACAAGGGACAAGCCGATTTGACGAACAAGAGATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCtt                                                                                                                         <  1:119246/141‑1 (MQ=255)

               tGAAGAAATGTCTGAACAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACTCCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCttt                                                                                                                        <  1:108456/141‑1 (MQ=255)

                    aaaTGTTTGAACAAGTGACAAGCCAATTTGACCAACAAGATTTTGTTGTAAAAGCAGCAGCTGTATCTGACTATACACCGGTTGATCTATTAGAACATAAGATGAAAAAGCACGATGATGATTTGTCAGTATCTTTTAAAc                                                                                                                   <  1:599169/141‑1 (MQ=255)

                           tGAACAAGTGCCAAGCCTATTTGACGAACAAGATACTGTTGTAAAAGCAGCAGCCGTACCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTGGTCAGTATTTTTTAAACGTACTaa                                                                                                            <  1:212773/141‑1 (MQ=255)

                           tGAACAAGTGCCAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTaa                                                                                                            <  1:395908/141‑1 (MQ=255)

                               cAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGAc                                                                                                        <  1:30037/141‑1 (MQ=255)

                                         gCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAat                                                                                              <  1:849550/141‑1 (MQ=255)

                                           ctaTTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAatat                                                                                            <  1:180209/139‑1 (MQ=255)

                                           ccaTTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAatat                                                                                            <  1:378514/139‑1 (MQ=255)

                                           cGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAatat                                                                                            <  1:503654/141‑1 (MQ=255)

                                           cGACTTGACAAACAAGATATTGTCGTAAAAGCAGCAGCCGTAGCTGACGATACACCGGGTGATGTATTAGCACATAAGATGAAAAAGCAGGATGATGATTGGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAatat                                                                                            <  1:495741/141‑1 (MQ=255)

                                            gATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATAtt                                                                                           >  1:72526/1‑141 (MQ=255)

                                              tttGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACCCCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTa                                                                                         >  1:17692/1‑141 (MQ=255)

                                                tGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAgg                                                                                       >  1:661202/1‑141 (MQ=255)

                                                tGACGAACAAGATACTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAgg                                                                                       <  1:644854/141‑1 (MQ=255)

                                                         aGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATaa                                                                              <  1:67505/141‑1 (MQ=255)

                                                                gttgtAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATATTTTAATTGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATca                                                                       <  1:179212/141‑1 (MQ=255)

                                                                             cagcCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAg                                                          <  1:326468/141‑1 (MQ=255)

                                                                             cagcCGTATCTGACGATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAg                                                          <  1:434822/141‑1 (MQ=255)

                                                                              agcCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAgg                                                         <  1:428462/141‑1 (MQ=255)

                                                                                ccGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCt                                                       >  1:324107/1‑141 (MQ=255)

                                                                                 cGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCCCAGTATTTAATAGGCtt                                                      >  1:811635/1‑141 (MQ=255)

                                                                                 cGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGGGAACATAAAACATCCCAGTATTTAATAGGCtt                                                      >  1:811629/1‑141 (MQ=255)

                                                                                              acacCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACt                                         >  1:905349/1‑141 (MQ=255)

                                                                                                 ccGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGaa                                      <  1:389583/141‑1 (MQ=255)

                                                                                                       gATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGaacgtctt                                >  1:311028/1‑135 (MQ=255)

                                                                                                       gATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATAtt                                >  1:702943/1‑141 (MQ=255)

                                                                                                       gATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATAtt                                >  1:702861/1‑141 (MQ=255)

                                                                                                       gATGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAAAGTACTAAAGACATTCTTAAAGATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATAtt                                <  1:728215/141‑1 (MQ=255)

                                                                                                        aTGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTg                               >  1:181957/1‑141 (MQ=255)

                                                                                                        aTGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTg                               >  1:542566/1‑141 (MQ=255)

                                                                                                         tGTATTAGAACATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTGa                              >  1:584981/1‑141 (MQ=255)

                                                                                                                  aCATAAGATGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACGGAAGATATTGAAAATTATGc                     >  1:604308/1‑141 (MQ=255)

                                                                                                                    aTAAGATAAAAAAGCAGGATGGTGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTCTTTAATAGGCTTTGCAGCAGAGACTGAAGAAATTGACAATTATGcac                   >  1:585887/1‑141 (MQ=255)

                                                                                                                          tGAAAAAGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTGAAAATTATGCACAACaaa             >  1:164763/1‑141 (MQ=255)

                                                                                                                                aGCAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTGAAAATTATGCACAACAAAAATTaa       >  1:810876/1‑140 (MQ=255)

                                                                                                                                  cAGGATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTGAAAATGATGCACAACAAAAATTACGc     >  1:882601/1‑141 (MQ=255)

                                                                                                                                   aGGATGATGATTTGTCAGTATCCTTTAAACGTACTCAAGACCTTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCGTTGTGGCAGAGACTGAAGATATTGAAAATTATGCACAACAAAAATTACGCa    <  1:309102/141‑1 (MQ=255)

                                                                                                                                    ggATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTGTTTCATAGTCATGGCAGTAGAGACTGAAGATATTGAAAATTATGCACAACAAAAATTACGCaa   >  1:257568/1‑141 (MQ=255)

                                                                                                                                    ggATGATGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTGAAAATTATGCACAACAAAAATTACGCaa   <  1:923030/141‑1 (MQ=255)

                                                                                                                                     gatgatgatTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTGAAAATTATGCACAACAAAAATTACGCAAg  >  1:881773/1‑141 (MQ=255)

TCATGTTCAAAGTGCTGAAGAAATGTTTGAACAAGTGACAAGCCGATTTGACGAACAAGATATTGTTGTAAAAGCAGCAGCCGTATCTGACTATACACCGGTTGATGTATTAGAACATAAGATGAAAAAGCAGGATGGTGATTTGTCAGTATCTTTTAAACGTACTAAAGACATTCTTAAATATTTAGGTGAACATAAAACATCACAGTATTTAATAGGCTTTGCAGCAGAGACTGAAGATATTGAAAATTATGCACAACAAAAATTACGCAAG  >  CP000730/1222550‑1222823

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A