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
A6 F1 I2 R1	758	59.3	2864096	93.9%	2689386	105.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,719,768	G→A	97 (TAG→TAA)	yiaG →	HTH_CROC1 family putative transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,719,768	0	G	A	100.0%	180.2 / NA	56	97 (TAG→TAA)	yiaG	HTH_CROC1 family putative transcriptional regulator
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (28/28); total (28/28)

GTTTTGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTA  >  NC_000913/3719640‑3719902

gTTTTGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATcc                                                                                                                              >  1:368056/1‑139 (MQ=255)

   ttGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACt                                                                                                                           >  1:1424973/1‑139 (MQ=255)

    tGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACtt                                                                                                                          >  2:1079285/1‑139 (MQ=255)

        cGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTAtt                                                                                                                      <  2:368056/139‑1 (MQ=255)

         gTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTg                                                                                                                     >  1:126949/1‑139 (MQ=255)

          tATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGc                                                                                                                    >  2:1303270/1‑139 (MQ=255)

                tCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTa                                                                                                              <  2:126949/139‑1 (MQ=255)

                  gCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATTCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACg                                                                                                            <  2:1024873/139‑1 (MQ=255)

                  gCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACg                                                                                                            <  2:673393/139‑1 (MQ=255)

                  gCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACg                                                                                                            <  1:1303270/139‑1 (MQ=255)

                   ccATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACtt                                                                                                                                    >  1:1065637/1‑114 (MQ=255)

                   ccATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACtt                                                                                                                                    <  2:1065637/114‑1 (MQ=255)

                       ggTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCt                                                                                                       >  2:201657/1‑139 (MQ=255)

                       ggTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCt                                                                                                       >  1:47657/1‑139 (MQ=255)

                                  gggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCa                                                                                                                             <  2:1136876/106‑1 (MQ=255)

                                  gggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCa                                                                                                                             >  1:1136876/1‑106 (MQ=255)

                                  gggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCa                                                                                                                             <  1:645759/106‑1 (MQ=255)

                                  gggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCa                                                                                                                             >  2:645759/1‑106 (MQ=255)

                                  gggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGAc                                                                                            >  2:1008925/1‑139 (MQ=255)

                                   ggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCATTTGATGGAATAAACTGTTATCCACTTTATTGCTGTTTACGGTCCt                                                                                                       <  2:825939/127‑1 (MQ=255)

                                   ggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCt                                                                                                       >  1:825939/1‑127 (MQ=255)

                                   ggAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGAcc                                                                                           >  1:59619/1‑139 (MQ=255)

                                       tCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGttt                                                                                       >  2:592411/1‑139 (MQ=255)

                                           gACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCa                                                                                   <  1:1175906/139‑1 (MQ=255)

                                            aCGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCaa                                                                                  <  2:47657/139‑1 (MQ=255)

                                                gTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGa                                                                              <  2:273342/139‑1 (MQ=255)

                                                gTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGa                                                                              <  1:1008925/139‑1 (MQ=255)

                                                          cAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATaa                                                                    >  1:1086426/1‑139 (MQ=255)

                                                          cAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATaa                                                                    >  1:1384599/1‑139 (MQ=255)

                                                                        aaaTTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTg                                                                                                                     <  2:1094886/76‑1 (MQ=255)

                                                                        aaaTTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTg                                                                                                                     >  1:1094886/1‑76 (MQ=255)

                                                                        aaaTTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAaataat                                                      <  2:1086426/139‑1 (MQ=255)

                                                                              aTGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGAt                                                                             <  2:1385244/110‑1 (MQ=255)

                                                                              aTGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGAt                                                                             >  1:1385244/1‑110 (MQ=255)

                                                                               tGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTAATGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCa                                                                                   >  1:636483/1‑103 (MQ=255)

                                                                               tGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTAATGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCa                                                                                   <  2:636483/103‑1 (MQ=255)

                                                                                  gTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTa                                                                                                                        <  2:587607/63‑1 (MQ=255)

                                                                                  gTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTa                                                                                                                        >  1:587607/1‑63 (MQ=255)

                                                                                    ttGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCAcc                                          <  1:1079285/139‑1 (MQ=255)

                                                                                              ccAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCg                                <  2:1424973/139‑1 (MQ=255)

                                                                                              ccAACCCGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCg                                <  2:59619/139‑1 (MQ=255)

                                                                                                  cccGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCa                                               <  2:822002/120‑1 (MQ=255)

                                                                                                  cccGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCa                                               >  1:822002/1‑120 (MQ=255)

                                                                                                  cccGGCATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGc                            >  1:813280/1‑139 (MQ=255)

                                                                                                       cATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGAt                                                                             >  1:271083/1‑85 (MQ=255)

                                                                                                       cATTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGAt                                                                             <  2:271083/85‑1 (MQ=255)

                                                                                                        aTTAAGTAAGCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATg                      <  2:813280/139‑1 (MQ=255)

                                                                                                            agtaagCAGTTGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGcaca                  >  2:111042/1‑139 (MQ=255)

                                                                                                                     ttGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTaa                        <  2:978891/124‑1 (MQ=255)

                                                                                                                     ttGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTaa                        >  1:978891/1‑124 (MQ=255)

                                                                                                                     ttGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGtt         >  2:265547/1‑139 (MQ=255)

                                                                                                                      tGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCCACCGATTAATCATAAATATGAAAAATAATTGCTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGttt        >  2:931321/1‑139 (MQ=255)

                                                                                                                      tGATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAaat                                                         <  2:887645/90‑1 (MQ=255)

                                                                                                                      tGATGGAATAAACTTTTATCCACTTTATCGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGTTTAATCATAAATATGAAAaat                                                         >  1:887645/1‑90 (MQ=255)

                                                                                                                       gATGGAATAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTg       <  1:401254/139‑1 (MQ=255)

                                                                                                                            aaTAAACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGATTGACGTa  <  1:931321/139‑1 (MQ=255)

GTTTTGGGCGTATCAGTCGCCATGGTAAAGGAATGGGAATCCAGACGCGTGAAGCCTTCAAGTGCCGAACTAAAATTGATGCGTTTGATTCAAGCCAACCCGGCATTAAGTAAGCAGTTGATGGAATAGACTTTTATCCACTTTATTGCTGTTTACGGTCCTGATGACAGGACCGTTTTCCAACCGATTAATCATAAATATGAAAAATAATTGTTGCATCACCCGCCAATGCGTGGCTTAATGCACATCAACGGTTTGACGTA  >  NC_000913/3719640‑3719902

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A