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
A13 F63 I0 R1	31	53.1	1128482	96.8%	1092370	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	367,644	G→T	100%	intergenic (‑96/‑20)	nanA ← / → nagC	N‑acetylneuraminate lyase/possible transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	367,644	0	G	T	100.0%	195.4 / NA	60	intergenic (‑96/‑20)	nanA/nagC	N‑acetylneuraminate lyase/possible transcriptional regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (30/30); total (30/30)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATGTTT  >  CP000730/367510‑367780

gAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCatat                                                                                                                                    >  1:237078/1‑141 (MQ=255)

 agtaactcatgatatAAACCTTTTTAATCTTTGTTCATTATTAAGTCCCTCCAAAAATCATTGTATAATATAGTTTACAGCTATAATTGTAAAGGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATAtt                                                                                                                                   <  2:351326/130‑1 (MQ=255)

     aCGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATg                                                                                                                               <  1:33016/141‑1 (MQ=255)

     aCGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATg                                                                                                                               >  1:495483/1‑141 (MQ=255)

     aCGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTGGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATg                                                                                                                               <  2:369206/141‑1 (MQ=255)

     aCGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGCCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATg                                                                                                                               <  1:16481/141‑1 (MQ=255)

        cTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGtat                                                                                                                            <  1:124444/141‑1 (MQ=255)

                 aaCCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGa                                                                                                                   >  1:121957/1‑141 (MQ=255)

                 aaCCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGa                                                                                                                   <  2:237078/141‑1 (MQ=255)

                  aCCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGaa                                                                                                                  >  1:443916/1‑141 (MQ=255)

                           aTCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGttttt                                                                                                         <  2:305497/141‑1 (MQ=255)

                             cTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCCTAAAATGTAACAATATCTTTTTGAACATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCa                                                                                                       >  2:128309/1‑141 (MQ=255)

                             cTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCa                                                                                                       <  1:34547/141‑1 (MQ=255)

                                tGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCaaaa                                                                                                    >  1:139023/1‑141 (MQ=255)

                                    cATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAAGGTTTTTCAAAATCaa                                                                                                >  1:327963/1‑141 (MQ=255)

                                     aTTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAAt                                                                                               <  2:136125/141‑1 (MQ=255)

                                     aTTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAAt                                                                                               <  1:550542/141‑1 (MQ=255)

                                      ttATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATa                                                                                              >  1:297944/1‑141 (MQ=255)

                                        aTGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGa                                                                                            >  2:522708/1‑141 (MQ=255)

                                            aGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATg                                                                                        >  1:161015/1‑141 (MQ=255)

                                                ccTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGgagt                                                                                    >  1:401404/1‑141 (MQ=255)

                                                  tCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATAAATAGAAATGgcgtga                                                                                  >  2:207963/1‑141 (MQ=255)

                                                  tCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATAATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCATAATAAATAGACATGgagtga                                                                                  >  2:207872/1‑141 (MQ=255)

                                                          tCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGgtg                                                                          <  2:443405/141‑1 (MQ=255)

                                                          tCATTTAATAATATAGTTTACAGCTATAAGTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGgtg                                                                          <  2:108229/141‑1 (MQ=255)

                                                          tCAGTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTACTGAACAGGTTTTTCAACACCAATAGAAACGGAGTGAGTAAGttg                                                                          <  2:271174/141‑1 (MQ=255)

                                                           cATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGgtgt                                                                         >  2:301402/1‑141 (MQ=255)

                                                           cATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGgagt                                                                         >  2:479918/1‑141 (MQ=255)

                                                                 ataataTAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACa                                                                   >  1:495624/1‑141 (MQ=255)

                                                                      ataGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCa                                                              >  1:518802/1‑141 (MQ=255)

                                                                      ataGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCa                                                              >  1:73271/1‑141 (MQ=255)

                                                                       taGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCaa                                                             <  2:427379/141‑1 (MQ=255)

                                                                       taGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGCATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCaa                                                             <  2:309729/141‑1 (MQ=255)

                                                                        aggttACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAAt                                                            <  1:476399/138‑1 (MQ=255)

                                                                           ttACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGa                                                         <  1:493361/141‑1 (MQ=255)

                                                                           ttACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTAAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATcaa                                                         >  2:44343/1‑139 (MQ=255)

                                                                            tACAGATATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAAAGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGat                                                        <  1:17174/141‑1 (MQ=255)

                                                                                gCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGATGTATTACATCGCAATCGATATTg                                                    >  1:185156/1‑141 (MQ=255)

                                                                                         gTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTc                                           >  1:109821/1‑141 (MQ=255)

                                                                                          tAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCCCTCa                                          >  2:303928/1‑141 (MQ=255)

                                                                                              cGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAAtt                                      <  2:495483/141‑1 (MQ=255)

                                                                                                   tCATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATc                                 >  1:257097/1‑141 (MQ=255)

                                                                                                    cATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTTTTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCg                                >  1:414339/1‑141 (MQ=255)

                                                                                                    cATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCg                                <  2:455807/141‑1 (MQ=255)

                                                                                                    cATAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGCAAGGTGTATTACATCGCAATCGATATTGAAGGCATTCAAATTAAAtag                                >  2:260664/1‑139 (MQ=255)

                                                                                                     aTAAAATGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATCGAAATAGAGTGAGTAAGGTGTATTACATCGCAATCTATATTCGAGGCACTCAAATaaaacaga                               >  2:507513/1‑137 (MQ=255)

                                                                                                          aTGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGtt                          <  2:73271/141‑1 (MQ=255)

                                                                                                          aTGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGtt                          <  2:518802/141‑1 (MQ=255)

                                                                                                          aTGTAACAATATCTTTTTGAAAATTGTATTCATATTTATGTAAAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGGGAGTAAGGTGTATCACATAGCAATCGATACTGGGGGCCCTCAAACTAAATCGGCacct                          >  1:432208/1‑138 (MQ=255)

                                                                                                            gTAACAATATCTTTTTGACAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATGACATCGCAATCGATATTGGAGGCACTCAAATTCAATCGGCAGTTAt                        >  2:311084/1‑141 (MQ=255)

                                                                                                                cAATATCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGATGTATTACATCGCAATCCACATTGGAGGAACTCAAATTAACTCGGCTGTTATTgca                    >  2:1037/1‑139 (MQ=255)

                                                                                                                   tatCTTTTTGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAg                 <  2:443916/141‑1 (MQ=255)

                                                                                                                       ttttttAAAATTGTATTCATATTTATGTATAATTAATGAAAATTTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGTTGTATTACATCTCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAAt             <  2:346625/141‑1 (MQ=255)

                                                                                                                       tttttGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAAt             <  2:405338/141‑1 (MQ=255)

                                                                                                                        ttttGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAAtt            <  1:301402/141‑1 (MQ=255)

                                                                                                                         tttGAAAATTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTg           <  1:220127/141‑1 (MQ=255)

                                                                                                                            taaaaCTGTATTAATATTTATGCATAATTAATGAAAATGTTTCTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTACTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAat        <  2:416381/140‑1 (MQ=255)

                                                                                                                               aaTTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCCCTCAAATTAAATCGGCCGCTATTAATAAGCAATTGAatatt     >  2:523738/1‑140 (MQ=255)

                                                                                                                                aTTGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATGt    <  2:161015/141‑1 (MQ=255)

                                                                                                                                  tGTATTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATGttt  <  2:498840/141‑1 (MQ=255)

GAGTAACGCTGCATATAAACCTTTTAAATCTTTGTTCATTATGAAGTCCCTCCAAAAATCATTTGATAATATAGTTTACAGCTATAATTGTAAACGCTATCATAAAATGTAACAATATCTTTTTGAAAATTGTAGTCATATTTATGTATAATTAATGAAAATGTTTTTCAAAATCAATAGAAATGGAGTGAGTAAGGTGTATTACATCGCAATCGATATTGGAGGCACTCAAATTAAATCGGCAGTTATTGATAAGCAATTGAATATGTTT  >  CP000730/367510‑367780

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A