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
A7 F28 I1 R1	252	48.5	1661298	98.8%	1641362	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,887,647	T→C	E222E (GAA→GAG)	cysH ←	phosphoadenosine phosphosulfate reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,887,647	0	T	C	100.0%	171.4 / NA	50	E222E (GAA→GAG)	cysH	phosphoadenosine phosphosulfate reductase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (22/28); total (22/28)

TGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGTTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCGGTTATCCCAGTCGATAATCGGCAGCAC  >  NC_000913/2887512‑2887778

tgctgcTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTccc                                                                                                                                 >  1:735539/1‑140 (MQ=255)

   tgctCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCAtt                                                                                                                              >  2:619494/1‑140 (MQ=255)

      tCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTAc                                                                                                                           <  2:526875/140‑1 (MQ=255)

       cGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACg                                                                                                                          <  2:286667/140‑1 (MQ=255)

       cGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACg                                                                                                                          <  1:461660/140‑1 (MQ=255)

        gCAAAAT‑AAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCGGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACggg                                                                                                                        <  2:363029/140‑1 (MQ=255)

         cAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACggg                                                                                                                        <  1:619494/140‑1 (MQ=255)

          aaaaTAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACggg                                                                                                                        >  1:319940/1‑139 (MQ=255)

          aaaaTAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACggg                                                                                                                        <  2:319940/139‑1 (MQ=255)

              tAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTa                                                                                                                   <  2:562894/140‑1 (MQ=255)

               aaaaaCGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAGCGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTAt                                                                                                                  <  1:387366/140‑1 (MQ=255)

                        cccATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCAGGCTCCCATTTACGGGTTGTATGGGTATCGc                                                                                                         >  2:391202/1‑140 (MQ=255)

                                ttCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATTGCCCACCGAt                                                                                                 <  2:264124/140‑1 (MQ=255)

                                ttCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCg                                                                                                   >  1:105144/1‑138 (MQ=255)

                                ttCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCg                                                                                                   <  2:105144/138‑1 (MQ=255)

                                ttCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGAt                                                                                                 >  2:539064/1‑140 (MQ=255)

                                 tCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATa                                                                                                >  2:327901/1‑140 (MQ=255)

                                 tCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTA‑CGCCCACCGATaa                                                                                               >  2:43464/1‑140 (MQ=255)

                                    gACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAat                                                                                             <  1:203881/140‑1 (MQ=255)

                                         agGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCt                                                                                        <  1:539064/140‑1 (MQ=255)

                                          ggCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGTGTTGTATGGGTATCGCCCACCGATAAATATCCtt                                                                                       <  2:735539/140‑1 (MQ=255)

                                                   tttGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATa                                                                              <  1:171719/140‑1 (MQ=255)

                                                    ttGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATaa                                                                             <  1:454651/140‑1 (MQ=255)

                                                     tGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCAt                                                                                    >  2:188496/1‑132 (MQ=255)

                                                     tGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCAt                                                                                    <  1:188496/132‑1 (MQ=255)

                                                                          cGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGt                                                       >  2:231518/1‑140 (MQ=255)

                                                                          cGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGt                                                       >  1:539950/1‑140 (MQ=255)

                                                                          cGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGt                                                       >  2:637118/1‑140 (MQ=255)

                                                                          cGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGt                                                       >  1:357276/1‑140 (MQ=255)

                                                                               aaCCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTg                                                  <  1:536269/140‑1 (MQ=255)

                                                                                aCCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGc                                                 >  1:43736/1‑140 (MQ=255)

                                                                                  ccACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTA‑CGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAgg                                              <  1:43464/140‑1 (MQ=255)

                                                                                   aacaTTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAgg                                              <  2:519908/139‑1 (MQ=255)

                                                                                     caTTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTa                                            <  2:357276/140‑1 (MQ=255)

                                                                                     caTTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTa                                            <  2:407342/140‑1 (MQ=255)

                                                                                     caTTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTa                                            <  2:486667/140‑1 (MQ=255)

                                                                                      aTTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTAc                                           >  2:727915/1‑140 (MQ=255)

                                                                                             ttttAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATaaa                                    <  1:327901/140‑1 (MQ=255)

                                                                                               ttAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTa                                            <  1:781427/130‑1 (MQ=255)

                                                                                               ttAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTa                                            >  2:781427/1‑130 (MQ=255)

                                                                                                    ccAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAGATAGTTCg                             >  2:476062/1‑140 (MQ=255)

                                                                                                    ccAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCg                             >  1:4072/1‑140 (MQ=255)

                                                                                                    ccAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCg                             >  1:497884/1‑140 (MQ=255)

                                                                                                      aaaGAAACGCGTTTCTTCTTCCGCCATGCCGGGCTCCTATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCGGt                           >  1:799632/1‑140 (MQ=255)

                                                                                                               cgTTTCTTCTTCCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAGATAGTTCGGTTATCCCAGt                  <  1:476062/140‑1 (MQ=255)

                                                                                                                   tcttcttcCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCGGTTATCCCAGTCGAt              >  2:487923/1‑140 (MQ=255)

                                                                                                                    cttcttcCGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCGGTTATCCCAGTCGATa             <  1:727915/140‑1 (MQ=255)

                                                                                                                          ccGCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCGGTTATCCCAGTCGATAATCGgc       >  1:330276/1‑140 (MQ=255)

                                                                                                                            gCCATGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCGGTTATCCCAGTCGATAATCGgcag     <  2:290725/140‑1 (MQ=255)

                                                                                                                               aTGCCGGGCTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCGGTTATCCCAGTCGATAATCGGCAGCAc  <  2:43736/140‑1 (MQ=255)

TGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGCCGGGTTCCCATTTACGGGTTGTATGGGTATCGCCCACCGATAAATATCCTTCATCCCATAATGGGTGATATTTCAGGCCATGTTTTTGCAGGTACTGATAAATAGTTCGGTTATCCCAGTCGATAATCGGCAGCAC  >  NC_000913/2887512‑2887778

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `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