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 F28 I1 R1	159	82.1	2830106	99.3%	2810295	139.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,988,500	G→A	intergenic (+332/‑2)	yqeH → / → yqeI	putative LuxR family transcriptional regulator YqeH/putative transcriptional regulator YqeI

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,988,500	0	G	A	100.0%	222.8 / NA	62	intergenic (+332/‑2)	yqeH/yqeI	putative LuxR family transcriptional regulator YqeH/putative transcriptional regulator YqeI
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (39/23); total (39/23)

TTTACGTTGCAACATTAAAGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACGTATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTATCACTTCTACTTGAAGC  >  NC_000913/2988367‑2988632

tttACGTTGCAACATTAAAGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTa                                                                                                                                <  2:1039192/140‑1 (MQ=255)

 ttACGTTGCAACATTAAAGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTAc                                                                                                                               <  2:64596/140‑1 (MQ=255)

     gTTGCAACATTAAAGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGa                                                                                                                           <  2:315534/140‑1 (MQ=255)

     gTTGCAACATTAAAGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGa                                                                                                                           <  2:1267173/140‑1 (MQ=255)

     gTTGCAACATTAAAGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGa                                                                                                                           <  2:1007562/140‑1 (MQ=255)

        gCAACATTATAGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGatta                                                                                                                        >  2:134138/1‑140 (MQ=255)

               tAAAGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGa                                                                                                                 <  2:997872/140‑1 (MQ=255)

                 aaGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGata                                                                                                               >  1:154971/1‑140 (MQ=255)

                 aaGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGata                                                                                                               >  2:753752/1‑140 (MQ=255)

                 aaGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGata                                                                                                               <  2:873360/140‑1 (MQ=255)

                        aTTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGa                                                                                                        >  2:1370523/1‑140 (MQ=255)

                             aaTCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCt                                                                                                   <  2:890047/140‑1 (MQ=255)

                                catcatGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGc                                                                                                <  2:154357/140‑1 (MQ=255)

                                            tataAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGaa                                                                                    >  1:1286851/1‑140 (MQ=255)

                                             ataAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGaaa                                                                                   >  2:350736/1‑140 (MQ=255)

                                             ataAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGaaa                                                                                   >  2:331874/1‑140 (MQ=255)

                                                  aTTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTaa                                                                              <  1:346772/140‑1 (MQ=255)

                                                      atatatatTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATc                                                                          >  1:518612/1‑140 (MQ=255)

                                                       tatatatTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCg                                                                         <  1:243991/140‑1 (MQ=255)

                                                       tatatatTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCg                                                                         <  2:518612/140‑1 (MQ=255)

                                                            atTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACa                                                                    <  2:87770/140‑1 (MQ=255)

                                                                 tGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACg                                                               >  2:49295/1‑140 (MQ=255)

                                                                   ccGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGcc                                                             <  2:620253/140‑1 (MQ=255)

                                                                      tAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGAt                                                          >  2:553216/1‑140 (MQ=255)

                                                                      tAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGAt                                                          >  1:109616/1‑140 (MQ=255)

                                                                             cAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAAcg                                                   >  1:29785/1‑140 (MQ=255)

                                                                                tataCTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAAcgtcg                                                >  1:1286156/1‑140 (MQ=255)

                                                                                tataCTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAAcgtcg                                                >  2:103739/1‑140 (MQ=255)

                                                                                   aCTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTc                                             >  1:66125/1‑140 (MQ=255)

                                                                                       aGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGAc                                         >  1:998043/1‑140 (MQ=255)

                                                                                       aGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGAc                                         >  1:523091/1‑140 (MQ=255)

                                                                                       aGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGAc                                         >  2:940201/1‑140 (MQ=255)

                                                                                       aGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGAc                                         >  2:736897/1‑140 (MQ=255)

                                                                                       aGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGAc                                         >  1:998376/1‑140 (MQ=255)

                                                                                       aGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGAc                                         >  1:917513/1‑140 (MQ=255)

                                                                                       aGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGAc                                         >  1:888183/1‑140 (MQ=255)

                                                                                       aGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGAc                                         >  2:445449/1‑140 (MQ=255)

                                                                                         cAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACaa                                       >  1:723243/1‑140 (MQ=255)

                                                                                           aaCTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACg                                     <  1:793465/140‑1 (MQ=255)

                                                                                            aCTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACgc                                    >  2:425572/1‑140 (MQ=255)

                                                                                               aTGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACgccag                                 >  1:605816/1‑140 (MQ=255)

                                                                                               aTGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACgccag                                 <  1:940201/140‑1 (MQ=255)

                                                                                               aTGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACgccag                                 <  2:444853/140‑1 (MQ=255)

                                                                                                   gATCTCCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAAC‑CCGATCTTAACGTCGTTCTGACAACGCCAGCCAGt                            <  1:965223/140‑1 (MQ=255)

                                                                                                       tcCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACgccag                                 <  2:822786/132‑1 (MQ=255)

                                                                                                       tcCATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACgccag                                 >  1:822786/1‑132 (MQ=255)

                                                                                                        ccATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGAt                        >  1:1075555/1‑140 (MQ=255)

                                                                                                        ccATTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGAt                        >  2:356960/1‑140 (MQ=255)

                                                                                                          aTTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGt                      >  1:28192/1‑140 (MQ=255)

                                                                                                          aTTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGt                      >  1:696187/1‑140 (MQ=255)

                                                                                                          aTTTCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGt                      >  1:511065/1‑140 (MQ=255)

                                                                                                            ttCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGttt                    >  1:638918/1‑140 (MQ=255)

                                                                                                             tCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTa                   <  1:907648/140‑1 (MQ=255)

                                                                                                             tCGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTa                   <  1:753752/140‑1 (MQ=255)

                                                                                                              cGATTGATTTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTAt                  >  1:615928/1‑140 (MQ=255)

                                                                                                               gattgattTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTATc                 <  2:888183/140‑1 (MQ=255)

                                                                                                                attgattTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGTCAGTCGATGTTTATCa                >  2:165678/1‑140 (MQ=255)

                                                                                                                attgattTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTATCa                >  2:1158436/1‑140 (MQ=255)

                                                                                                                 ttgattTAGTGTTTATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCATCCAGTCGATGTTTATCAc               >  1:1147244/1‑140 (MQ=255)

                                                                                                                              tATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTATCACTTCTACTTGAAGc  <  2:66125/140‑1 (MQ=255)

                                                                                                                              tATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTATCACTTCTACTTGAAGc  >  1:1377304/1‑140 (MQ=255)

                                                                                                                              tATTGACATATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTATCACTTCTACTTGAAGc  >  1:848911/1‑140 (MQ=255)

TTTACGTTGCAACATTAAAGCCTCATTTCAATCATCATGATAAATATAAAATTAATATATATTTATGCCGTAAATACCAATATACTTAGCAAACTATGTGATCTCCATTTCGATTGATTTAGTGTTTATTGACGTATGTACTGGATTATTAACGATAATATCGAGTTCTGGCCTGAGCACCGAAAATTAATATCGGTACATAACGCCGATCTTAACGTCGTTCTGACAACGCCAGCCAGTCGATGTTTATCACTTCTACTTGAAGC  >  NC_000913/2988367‑2988632

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A