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
A10 F1 I1 R1	759	65.2	3386260	90.7%	3071337	101.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,796,916	T→C	Y38C (TAT→TGT)	yqaE ←	cyaR sRNA‑regulated protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,796,916	0	T	C	100.0%	237.0 / NA	65	Y38C (TAT→TGT)	yqaE	cyaR sRNA‑regulated protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (32/33); total (32/33)

CATAGCTACCTCATTCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATATACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCATATGTACTCCCTATAA  >  NC_000913/2796784‑2797043

cATAGCTACCTCATTCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCaa                                                                                                                           <  1:260929/139‑1 (MQ=255)

  tAGCTACCTCATTCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGc                                                                                                                         <  2:24623/139‑1 (MQ=255)

       aCCTCATTCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAgtgt                                                                                                                    >  1:122193/1‑139 (MQ=255)

         cTCATTCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCa                                                                                                                  >  2:910725/1‑139 (MQ=255)

         cTCATTCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCa                                                                                                                  >  1:75940/1‑139 (MQ=255)

         cTCATTCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCa                                                                                                                  >  1:1391101/1‑139 (MQ=255)

            aTTCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACa                                                                                                               >  1:1362853/1‑139 (MQ=255)

             ttCGTTAACGGAAACACTCAGAAAGTGTGGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAg                                                                                                              >  1:114772/1‑139 (MQ=255)

             ttCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAg                                                                                                              >  1:778557/1‑139 (MQ=255)

             ttCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAg                                                                                                              >  1:774842/1‑139 (MQ=255)

             ttCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAg                                                                                                              >  2:1049648/1‑139 (MQ=255)

             ttCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAg                                                                                                              >  2:363477/1‑139 (MQ=255)

               cGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGaa                                                                                                            <  1:507267/139‑1 (MQ=255)

                          acacTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAgt                                                                                                                      >  2:990139/1‑118 (MQ=255)

                          acacTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAgt                                                                                                                      <  1:990139/118‑1 (MQ=255)

                          acacTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATg                                                                                                 <  1:838845/139‑1 (MQ=255)

                                     gtgtAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAAcc                                                                                      <  2:122193/139‑1 (MQ=255)

                                      tgtAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAg                                                                                                              >  2:1393844/1‑114 (MQ=255)

                                      tgtAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAg                                                                                                              <  1:1393844/114‑1 (MQ=255)

                                        tAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGaa                                                                                   <  1:910725/139‑1 (MQ=255)

                                          gCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACATGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAAcc                                                                                 >  1:1348199/1‑139 (MQ=255)

                                                gAACGCGGCGCATTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTAc                                                                           >  2:154062/1‑139 (MQ=255)

                                                     cggcgCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCaa                                                                                                                           >  2:794708/1‑86 (MQ=255)

                                                     cggcgCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCaa                                                                                                                           <  1:794708/86‑1 (MQ=255)

                                                        cgcgTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAgt                                                                                                                      >  2:1248751/1‑88 (MQ=255)

                                                        cgcgTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAgt                                                                                                                      <  1:1248751/88‑1 (MQ=255)

                                                                cgccgcGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAg                                                           <  2:1391101/139‑1 (MQ=255)

                                                                cgccgcGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAg                                                           >  1:1035412/1‑139 (MQ=255)

                                                                      ggggATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGcggcgg                                                     <  1:154062/139‑1 (MQ=255)

                                                                        ggATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCa                                                   <  2:75940/139‑1 (MQ=255)

                                                                             aGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCa                                                                                                                        <  1:1377567/65‑1 (MQ=255)

                                                                             aGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCa                                                                                                                        >  2:1377567/1‑65 (MQ=255)

                                                                             aGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAatg                                              <  2:778557/139‑1 (MQ=255)

                                                                                  aGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGt                                         >  2:253867/1‑139 (MQ=255)

                                                                                       tAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAAcc                                                                                      >  2:1121767/1‑89 (MQ=255)

                                                                                       tAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAAcc                                                                                      <  1:1121767/89‑1 (MQ=255)

                                                                                       tAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGtgatga                                    >  2:770309/1‑139 (MQ=255)

                                                                                       tAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGtgatga                                    >  1:1087641/1‑139 (MQ=255)

                                                                                       tAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGtgatga                                    <  2:1348199/139‑1 (MQ=255)

                                                                                       tAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGtgatga                                    >  2:1661016/1‑139 (MQ=255)

                                                                                       tAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATGAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACTCCGAGCGGCGGCAGAATGATGGtgatga                                    <  1:1049648/139‑1 (MQ=255)

                                                                                          tCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGa                                 <  2:1362853/139‑1 (MQ=255)

                                                                                            gcgGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATg                                                                                                 >  1:1157862/1‑73 (MQ=255)

                                                                                            gcgGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATg                                                                                                 <  2:1157862/73‑1 (MQ=255)

                                                                                              gggTTTGCACCCAGAACGCGTGAATCAAACCGGGGATacac                                                                                                                               <  1:29497/41‑1 (MQ=255)

                                                                                              gggTTTGCACCCAGAACGCGTGAATCAAACCGGGGATacac                                                                                                                               <  1:910544/41‑1 (MQ=255)

                                                                                                  ttGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAg                         <  2:1035412/139‑1 (MQ=255)

                                                                                                   tGCACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGa                        <  2:774842/139‑1 (MQ=255)

                                                                                                     cACCCAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGaaa                      <  2:114772/139‑1 (MQ=255)

                                                                                                       cccAGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAAcc                    <  1:770309/139‑1 (MQ=255)

                                                                                                          aGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGcggcgg                                                     >  2:996568/1‑103 (MQ=255)

                                                                                                          aGAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGcggcgg                                                     <  1:996568/103‑1 (MQ=255)

                                                                                                           gAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGcc                                                                                           >  1:948827/1‑64 (MQ=255)

                                                                                                           gAACGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGcc                                                                                           <  2:948827/64‑1 (MQ=255)

                                                                                                            aaCGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGtgatga                                    <  2:102535/118‑1 (MQ=255)

                                                                                                            aaCGCGTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGtgatga                                    >  1:102535/1‑118 (MQ=255)

                                                                                                                cgTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGaa                                                                                                            <  2:1452375/42‑1 (MQ=255)

                                                                                                                cgTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGaa                                                                                                            >  1:1452375/1‑42 (MQ=255)

                                                                                                                cgTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCa                                                   <  1:132128/99‑1 (MQ=255)

                                                                                                                cgTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCa                                                   >  2:132128/1‑99 (MQ=255)

                                                                                                                 gTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAg                                                           >  1:1231340/1‑90 (MQ=255)

                                                                                                                 gTGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAg                                                           <  2:1231340/90‑1 (MQ=255)

                                                                                                                  tGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCATATGTa            >  2:1423722/1‑136 (MQ=255)

                                                                                                                  tGAATCAAACCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCATATGTa            <  1:1423722/136‑1 (MQ=255)

                                                                                                                         aaCCGGGGATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCATATGTACTCCCTATaa  <  1:1661016/139‑1 (MQ=255)

                                                                                                                               ggATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCat                 >  2:481974/1‑118 (MQ=255)

                                                                                                                               ggATACACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCat                 <  1:481974/118‑1 (MQ=255)

CATAGCTACCTCATTCGTTAACGGAAACACTCAGAAAGTGTAGCAGAGGAACGCGGCGCGTTAACGCCGCGGGGATGAGCACAGGTTTAATCGCGGGTTTGCACCCAGAACGCGTGAATCAAACCGGGGATATACCCAAGCAGTGTCAACAGAATATTAATAATGAACGCCCAACCGAACCCTTTACCGAGCAGCACGCCGAGCGGCGGCAGAATGATGGTGATGACGATTCTCCAGAAACCCATATGTACTCCCTATAA  >  NC_000913/2796784‑2797043

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A