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 F50 I3 R1	283	58.3	1819865	98.8%	1798026	150.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,883,255	C→T	D159N (GAT→AAT)	dnaA ←	chromosomal replication initiator protein DnaA, DNA‑binding transcriptional dual regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,883,255	0	C	T	100.0%	195.0 / NA	51	D159N (GAT→AAT)	dnaA	chromosomal replication initiator protein DnaA, DNA‑binding transcriptional dual regulator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (24/27); total (24/27)

AACAAAGCGCTCGGAGTGCATATAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATCCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGGCCGGGACGTTATCCCAACCTGAGCGCGTAGAAGGC  >  NC_000913/3883109‑3883400

aaCAAAGCGCTCGGAGTGCATATAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGcc                                                                                                                                               >  2:829520/1‑151 (MQ=255)

    aaGCGCTCGGAGTGCATATAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCt                                                                                                                                           >  2:806524/1‑151 (MQ=255)

     aGCGCTCGGAGTGCATATAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTg                                                                                                                                          >  1:499291/1‑151 (MQ=255)

       cgcTCGGAGTGCATATAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGc                                                                                                                                        >  2:134072/1‑151 (MQ=255)

         cTCGGAGTGCATATAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCg                                                                                                                                       >  2:60390/1‑150 (MQ=255)

              aGTGCATATAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAgccgc                                                                                                                                 >  1:65891/1‑151 (MQ=255)

                  cATATAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCcgcg                                                                                                                             >  1:520116/1‑151 (MQ=255)

                   atatAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCcgcgc                                                                                                                            >  2:52591/1‑151 (MQ=255)

                   atatAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCcgcgc                                                                                                                            >  2:488665/1‑151 (MQ=255)

                              tttGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTgg                                                                                                                 >  1:235967/1‑151 (MQ=255)

                               ttGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTgg                                                                                                                 <  2:581279/150‑1 (MQ=255)

                                 ggCATTCGGCTTGCGCGCAATAAGGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGt                                                                                                                <  2:89538/149‑1 (MQ=255)

                                            tGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTc                                                                                                   >  2:78870/1‑151 (MQ=255)

                                              cgcgcCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCaa                                                                                                 <  2:681945/151‑1 (MQ=255)

                                              cgcgcCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCa                                                                                                  >  2:617739/1‑150 (MQ=255)

                                                  ccATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGaa                                                                                             <  1:798051/151‑1 (MQ=255)

                                                  ccATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGaa                                                                                             <  2:42976/151‑1 (MQ=255)

                                                   cATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTAGAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAg                                                                                            <  1:93330/151‑1 (MQ=255)

                                                      aaTGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGtt                                                                                          <  1:633973/150‑1 (MQ=255)

                                                           cGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCaaa                                                                                    <  2:480634/151‑1 (MQ=255)

                                                              tACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACgt                                                                                 >  1:332089/1‑151 (MQ=255)

                                                              tACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACgt                                                                                 >  1:53451/1‑151 (MQ=255)

                                                                cccACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACgtgt                                                                               <  1:471851/151‑1 (MQ=255)

                                                                   aCCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGtt                                                                            >  1:886575/1‑151 (MQ=255)

                                                                    ccGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGttt                                                                           <  2:52684/151‑1 (MQ=255)

                                                                           cagcagGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGttt                                                                    <  1:448942/151‑1 (MQ=255)

                                                                           caacgggTGTGTTTTCCCCAAACCCGAGCCGCCAAAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCATCGAACTTATCAAACGTGTGTTTGACGttt                                                                    <  2:43583/146‑1 (MQ=255)

                                                                            agcagGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTa                                                                   <  2:695814/151‑1 (MQ=255)

                                                                                ggTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGtt                                                               <  1:426328/151‑1 (MQ=255)

                                                                                 gTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTa                                                              <  2:748744/151‑1 (MQ=255)

                                                                                           cccAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAgg                                                    <  1:365454/151‑1 (MQ=255)

                                                                                             cAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCTCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATa                                                      <  1:93153/147‑1 (MQ=255)

                                                                                               gACCCGTGCCGCCATAAAGGAACAACGGGTTATAAGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCgg                                                >  1:233086/1‑151 (MQ=255)

                                                                                                  ccGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTc                                             <  1:633063/151‑1 (MQ=255)

                                                                                                   cGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTc                                             >  1:586512/1‑150 (MQ=255)

                                                                                                    gTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCACCGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTg                                           >  2:505202/1‑151 (MQ=255)

                                                                                                       ccgccATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTgccg                                        <  1:411637/151‑1 (MQ=255)

                                                                                                         gccATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTgccggg                                      <  1:149273/151‑1 (MQ=255)

                                                                                                         gccATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTgccggg                                      <  2:104353/151‑1 (MQ=255)

                                                                                                            aTAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTgccggggcc                                   <  2:233060/151‑1 (MQ=255)

                                                                                                              aaaGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTgccggggccg                                  <  2:787562/150‑1 (MQ=255)

                                                                                                                aGGAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTgccggggccggg                                >  2:192172/1‑150 (MQ=255)

                                                                                                                 ggAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGGCCGGGAc                              <  1:20251/151‑1 (MQ=255)

                                                                                                                  gAACAACGGGTTATAGGCACCGCCAGGGTTATTCGCCTCCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGGCCGGGACg                             <  1:500614/151‑1 (MQ=255)

                                                                                                                    acaacGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGGCCGGGACGtt                           <  1:437169/151‑1 (MQ=255)

                                                                                                                     caacGGGTTATAGGCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGGCCGGGACGtt                           >  2:666179/1‑150 (MQ=255)

                                                                                                                                 ggCACCGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGGCCGGGACGTTATCCCAACCTGAg              <  2:244177/151‑1 (MQ=255)

                                                                                                                                    aCCGCCAGGGGTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGCAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGTCCGGGACGTTATCCCAACCTGAgcgc           >  2:315677/1‑151 (MQ=255)

                                                                                                                                      cGCCAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGGCCGGGACGTTATCCCAACCTGAGCGCGt         >  2:765594/1‑151 (MQ=255)

                                                                                                                                        ccAGGGTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTTTGCCGGGGCCGGGACGTTATCCCAACCTGAGCGCGt         >  2:40777/1‑149 (MQ=255)

                                                                                                                                             gTTATTCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGGCCGGGACGTTATCCCAACCTGAGCGCGTAGAAGgc  >  2:556993/1‑151 (MQ=255)

AACAAAGCGCTCGGAGTGCATATAAACCACTTTGGCATTCGGCTTGCGCGCCATAATGCCGTTACCCACCGCATGCAGCAGGTGAGTTTTACCCAGACCCGTGCCGCCATAAAGGAACAACGGGTTATAGGCACCGCCAGGGTTATCCGCCACCTGGCGAGCCGCCGCGCGCGCCAGTTGGTTAGATTTACCTTCAACGAAGTTATCAAACGTGTGTTTGACGTTTACGTTAGAACGATAGGTCGGTTCTGCCGGGGCCGGGACGTTATCCCAACCTGAGCGCGTAGAAGGC  >  NC_000913/3883109‑3883400

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A