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
A4 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,316,160	G→A	891 (TAG→TAA)	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,316,160	0	G	A	100.0%	151.1 / NA	47	891 (TAG→TAA)	rcsD	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (23/24); total (23/24)

GCGTATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAGCAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTGAAGACTCTACAG  >  NC_000913/2316024‑2316294

gCGTATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACa                                                                                                                                      >  1:779183/1‑139 (MQ=255)

   tATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAgg                                                                                                                                   <  2:779183/139‑1 (MQ=255)

   tATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAgg                                                                                                                                   <  1:624079/139‑1 (MQ=255)

   tATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAgg                                                                                                                                   <  1:216623/139‑1 (MQ=255)

     tttGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTa                                                                                                                                 <  2:287270/139‑1 (MQ=255)

         ccATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCt                                                                                                                             <  2:421371/139‑1 (MQ=255)

               tAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACa                                                                                                                       <  2:648068/139‑1 (MQ=255)

                   tCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGaa                                                                                                                   <  2:693324/139‑1 (MQ=255)

                      ggTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGaa                                                                                                                   >  2:381076/1‑136 (MQ=255)

                      ggTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGaa                                                                                                                   <  1:381076/136‑1 (MQ=255)

                      ggTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACaa                                                                                                                >  2:159835/1‑139 (MQ=255)

                       gTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGGTTCGTGAGAAGGATCTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAat                                                                                                               >  2:613006/1‑139 (MQ=255)

                       gTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAat                                                                                                               <  1:159835/139‑1 (MQ=255)

                        tACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGaa                                                                                                                   <  1:392560/134‑1 (MQ=255)

                        tACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGaa                                                                                                                   >  2:392560/1‑134 (MQ=255)

                         aCCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAatat                                                                                                             <  1:614130/139‑1 (MQ=255)

                                        aTGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGc                                                                                              >  1:886444/1‑139 (MQ=255)

                                                cGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAg                                                                                                                                    <  1:135771/93‑1 (MQ=255)

                                                cGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAg                                                                                                                                    >  2:135771/1‑93 (MQ=255)

                                                  cTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATg                                                                                                                     <  2:143514/106‑1 (MQ=255)

                                                  cTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATg                                                                                                                     >  1:143514/1‑106 (MQ=255)

                                                   tGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATc                                                                                   >  1:735617/1‑139 (MQ=255)

                                                   tGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATc                                                                                   >  1:11872/1‑139 (MQ=255)

                                                   tGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATc                                                                                   >  1:221865/1‑139 (MQ=255)

                                                           cTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTc                                                                           >  1:500624/1‑139 (MQ=255)

                                                                     agaAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTa                                                                 >  1:849270/1‑139 (MQ=255)

                                                                         ggATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAg                                                                                                                                    >  2:39604/1‑68 (MQ=255)

                                                                         ggATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAg                                                                                                                                    <  1:39604/68‑1 (MQ=255)

                                                                          gATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGAcc                                                                                      >  2:437852/1‑113 (MQ=255)

                                                                          gATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGAcc                                                                                      <  1:437852/113‑1 (MQ=255)

                                                                             gTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCaaa                                                         >  1:248412/1‑139 (MQ=255)

                                                                               tCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTAc                                                                                                                        <  2:821584/74‑1 (MQ=255)

                                                                               tCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTAc                                                                                                                        >  1:821584/1‑74 (MQ=255)

                                                                               tCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAatta                                                                                                  <  1:409429/96‑1 (MQ=255)

                                                                               tCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAatta                                                                                                  >  2:409429/1‑96 (MQ=255)

                                                                                    gAATAGAAACATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTg                                                  <  1:745922/139‑1 (MQ=255)

                                                                                              aTACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAACTCACTTGAGCAAATTGa                                        <  1:581707/139‑1 (MQ=255)

                                                                                                  aTCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAg                                       <  1:335098/136‑1 (MQ=255)

                                                                                                  aTCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAg                                       >  2:335098/1‑136 (MQ=255)

                                                                                                                     aTGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGc                                                                                              <  2:483328/62‑1 (MQ=255)

                                                                                                                     aTGTCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGc                                                                                              >  1:483328/1‑62 (MQ=255)

                                                                                                                        tCAAGAGCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTg              >  1:190789/1‑139 (MQ=255)

                                                                                                                            gagCTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTGAAGa          <  2:190789/139‑1 (MQ=255)

                                                                                                                               cTTGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTGAAGActc       >  1:248290/1‑139 (MQ=255)

                                                                                                                                 tGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAg                                                >  2:601304/1‑96 (MQ=255)

                                                                                                                                 tGCTGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAg                                                <  1:601304/96‑1 (MQ=255)

                                                                                                                                    tGTAACAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTGAAGACTCTACAg  <  2:783903/139‑1 (MQ=255)

GCGTATTTGCCATGCTAAATCTGGTACCCGGCAAGCAGTTATGTGAAACGCTGGAACATCTGATTCGTGAGAAGGATGTTCCAGGAATAGAAAAATACATCAGCGACATTGACAGTTATGTCAAGAGCTTGCTGTAGCAAGGTAGCCTATTACATGAACAATATGAACGTAATTATTGCCGATGACCATCCGATAGTCTTGTTCGGTATTCGCAAATCACTTGAGCAAATTGAGTGGGTGAATGTTGTCGGCGAATTTGAAGACTCTACAG  >  NC_000913/2316024‑2316294

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A