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
A8 F110 I1 R1	9	45.0	1568152	94.0%	1474062	142.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,196,305	C→T	R395C (CGT→TGT)	icd →	isocitrate dehydrogenase, e14 prophage attachment site, tellurite reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,196,305	0	C	T	94.3%	140.1 / NA	55	R395C (CGT→TGT)	icd	isocitrate dehydrogenase, e14 prophage attachment site, tellurite reductase
Reads supporting (aligned to +/- strand): ref base C (1/0); major base T (29/21); minor base G (2/1); total (33/22)
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

GGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTAACG  >  NC_000913/1196166‑1196441

ggACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTc                                                                                                                                       <  1:94916/143‑1 (MQ=255)

   cAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTga                                                                                                                                    <  1:247991/143‑1 (MQ=255)

     aaGTAAATCCTGGGTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACCTGGGATGGACCGAAACGGCTGAGTTAAGTGCTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCGAAGACTTCGAGAGGctgctg                                                                                                                                  >  2:447678/1‑143 (MQ=25)

                     tattatTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGGTAAActgc                                                                                                                  >  1:64374/1‑143 (MQ=255)

                     tattatTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAActgc                                                                                                                  >  1:782086/1‑143 (MQ=255)

                     tattatTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTGCGAGTGTCTGATGGATAGCGCCACActgc                                                                                                                  >  2:778339/1‑143 (MQ=25)

                      attatgCTCTCCGCCGAGGTGATGCCGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAActgct                                                                                                                 <  1:293525/143‑1 (MQ=21)

                       ttattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGACTGATGGATGGCGCTAAAccgcgg                                                                                                                >  2:445923/1‑141 (MQ=255)

                               tcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAAGCGAGGACGTCGAGGATCTGATGGACGGCGCCAAACTGCCGacacggcc                                                                                                        >  2:551813/1‑136 (MQ=21)

                                  gCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTCATTGGTCAAGGTATGGAAGGAGCAATCAATATGAAAATCGCACCCTACAACATTGAGCGTCTGATAGATGGAGCTAAACTGCTGAAATGATCaaa                                                                                                     >  2:192262/1‑141 (MQ=255)

                                  gCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTCCACTGCTGAAACGTTCaga                                                                                                     >  1:379339/1‑143 (MQ=255)

                                  gCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCaga                                                                                                     <  1:580279/143‑1 (MQ=255)

                                  gCTGAGATGATGCTGCGCCACATGGGTTGGAACGAAGCGGTTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCaga                                                                                                     >  1:614454/1‑143 (MQ=255)

                                             gctgcGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGAcg                                                                                          >  1:217383/1‑143 (MQ=255)

                                             gcggcgcCACATCGGTTGTACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAATCCGTAACCTATGACTTCGAGTGTCTGATGGAGGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGAcg                                                                                          <  2:316656/140‑1 (MQ=18)

                                                gcgcCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGa                                                                                       >  1:764537/1‑143 (MQ=255)

                                                gcgcCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGa                                                                                       >  1:178903/1‑143 (MQ=255)

                                                 cgcCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGat                                                                                      >  1:33893/1‑143 (MQ=255)

                                                    cacaTGGGTTGGACCGGAGCGGCTGTCTTAAGTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGTGTTTGGTGACGCGatcat                                                                                   <  1:459600/143‑1 (MQ=18)

                                                     acaGGGGGTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGatcatc                                                                                  <  2:333964/143‑1 (MQ=255)

                                                              ggACCGAAGCGGCTGACTTAATTCTAAAATGGATGGAAGGCGCAATCAACGCGAAAACCGTAGCCTAGGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATg                                                                         <  1:394025/143‑1 (MQ=18)

                                                                 ccGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGCTTGGGTAGGAGATCACAGAAAACATGTag                                                                      >  2:339424/1‑142 (MQ=17)

                                                                    aaGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGCTCATCGAAAACATGGAATGc                                                                   >  2:720427/1‑143 (MQ=255)

                                                                         gCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGGGTCTGATGGATGGCGCTAGACTGCTGAAATGTTCAGAGGTTGGTGACGCGATCATCGAAAACAGGTAATGCCGTAg                                                              >  1:498553/1‑143 (MQ=255)

                                                                           tGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAGGAGTAACATATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAGATGTTCAGAGTTTGGTGACGCGGTCATCGAAGACATGGCACGCAGTAGtt                                                            >  2:54444/1‑143 (MQ=17)

                                                                            gcctgcagtGTTAAACGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCGGATGGATGGCTCTACACTGTTGAAATGTTCAGAGTGTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGttt                                                           <  2:404977/135‑1 (MQ=18)

                                                                              cTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGt                                                         <  1:403612/143‑1 (MQ=255)

                                                                               ttAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGCAAACCGTAACCTATGACTTCGAGTGTCTGATGGCCGGCGCTAAGCGGCTGAAATGTTCAGAGTTGAGTGAGGCGATCATCGAAAGCATGTAATGCCGTCGTTTGtt                                                        >  2:382017/1‑143 (MQ=17)

                                                                               ttAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAACTGTCCAGAGTTGGGTGACGCGATCATCGAAAAAATGTAATGCCGTAGTTTGtt                                                        >  2:673851/1‑143 (MQ=21)

                                                                                   ttGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTACAt                                                    >  1:383024/1‑143 (MQ=255)

                                                                                    tGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAACtt                                                   >  1:310436/1‑143 (MQ=255)

                                                                                      ttAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGGAGTTTGTTAAATtta                                                 >  1:762750/1‑143 (MQ=255)

                                                                                      tgaaaGGGATGGAAGGCGCAACCAACGCGAAGTCCGTAACCTGTGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATtta                                                 <  2:752300/141‑1 (MQ=18)

                                                                                           ggTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAAc                                            >  2:114818/1‑143 (MQ=255)

                                                                                            gTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGGTGAAGGGGTCATAGTTTGGTGACGCGATCATCGAAAACATGTAATGCAGGAGGTTGTTAAATTTATTaaag                                           >  2:553596/1‑141 (MQ=21)

                                                                                             tATGGAAGGCGCAATCAACGTGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACgg                                          <  1:334181/143‑1 (MQ=255)

                                                                                               tGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGa                                        <  1:200561/143‑1 (MQ=255)

                                                                                               tGGAAGGCGCAATCAACGCGAAAACAGTAACAAAAAACTTCGAGTTGCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGa                                        >  1:744225/1‑143 (MQ=25)

                                                                                                  aaGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCGGTAGTTTGTTAAATTTAGTAACGGGAGCg                                     >  2:69749/1‑143 (MQ=255)

                                                                                                       gcAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACg                                <  1:114818/143‑1 (MQ=255)

                                                                                                           tCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTTACGCTcc                            <  1:432419/143‑1 (MQ=255)

                                                                                                              aCGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCgt                         >  1:711115/1‑143 (MQ=255)

                                                                                                                gcgAAAACCGTCACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGGGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCgttg                       <  1:146309/143‑1 (MQ=255)

                                                                                                                 ccacacccGTAACTTGTGACTTGGATGGTCGGATGACTGGGTCTAAACTGCGGAAATGTTCAGATGTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTTACGCTCCCgttaa                      <  2:539229/137‑3 (MQ=21)

                                                                                                                     aaCCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAAAGCTCCCGTTGttttt                  >  2:574783/1‑143 (MQ=255)

                                                                                                                      gccGTAACCTATGACGTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGtttttt                 <  1:53080/142‑1 (MQ=255)

                                                                                                                       ccGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACACGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTg                >  2:124606/1‑143 (MQ=255)

                                                                                                                        cGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGt               <  1:489786/143‑1 (MQ=255)

                                                                                                                         gTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTTACGCTCCCgttaataaattta              <  1:2656/143‑11 (MQ=25)

                                                                                                                          tAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCCTAACGCGCCCGTTGTTTTTTGttc             >  2:607033/1‑142 (MQ=255)

                                                                                                                               tATGCCTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGGTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGgctg        <  2:18758/143‑1 (MQ=255)

                                                                                                                                aTGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTACCGTTGTTTTTTGTTAGgctgg       >  2:53065/1‑142 (MQ=255)

                                                                                                                                   aCTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTCTTAACTTTATTAACTGGAGCGTGACGGTCACGCTGTTTTTTGTTAGgctgctca    >  2:585317/1‑141 (MQ=25)

                                                                                                                                     ttCGAGTGTCTGATGGATTGCGCTAAACTGCTGAAATGTTCAGATTTTGGTGACGCGATCATCGAAAACAGGTAATGCCGTAGTTTGTTAAATTTTTTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTAACg  <  2:71617/143‑1 (MQ=255)

                                                                                                                                     ttCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTACCg  >  1:615382/1‑143 (MQ=255)

GGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTAACG  >  NC_000913/1196166‑1196441

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A