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	1,071,847	A→G	F105L (TTC→CTC)	rutC ←	putative aminoacrylate deaminase, reactive intermediate detoxification, weak enamine/imine deaminase activity

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,071,847	0	A	G	100.0%	235.9 / NA	65	F105L (TTC→CTC)	rutC	putative aminoacrylate deaminase, reactive intermediate detoxification, weak enamine/imine deaminase activity
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (33/32); total (33/32)

AACACCACTACGGGCGCATCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAATCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAGGTCACATCCGCCATCGTGCCACCCGCCGTCTCGATCACCTT  >  NC_000913/1071713‑1071979

aaCACCACTACGGGCGCATCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTcgc                                                                                                                                  >  1:527662/1‑139 (MQ=255)

        tACGGGCGCATCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGttt                                                                                                                          >  2:1237528/1‑139 (MQ=255)

          cGGGCGCATCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTAt                                                                                                                        <  2:973865/139‑1 (MQ=255)

          cGGGCGCATCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTAt                                                                                                                        >  1:973865/1‑139 (MQ=255)

             gcgcATCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCAc                                                                                                                     >  2:1671972/1‑139 (MQ=255)

                cATCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTAt                                                                                                                        <  2:168209/133‑1 (MQ=255)

                cATCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTAt                                                                                                                        >  1:168209/1‑133 (MQ=255)

                  tCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGTCCCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCgg                                                                                                                 >  1:1434062/1‑139 (MQ=255)

                    aGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCCCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGaac                                                                                                              <  2:1064483/139‑2 (MQ=255)

                        tAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAAc                                                                                                          <  2:1685877/139‑1 (MQ=255)

                           gggggAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGaaaaaa                                                                                                           <  1:1306349/135‑1 (MQ=255)

                           gggggAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGaaaaaa                                                                                                           >  2:1306349/1‑135 (MQ=255)

                              ggAGGTGAGAGTGAAAGTCTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCg                                                                                                    <  1:1138452/139‑1 (MQ=255)

                                     agagTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGAttt                                                                                             >  2:1012641/1‑139 (MQ=255)

                                     agagTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGAttt                                                                                             >  2:894016/1‑139 (MQ=255)

                                     agagTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGAttt                                                                                             >  2:831260/1‑139 (MQ=255)

                                     agagTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGAttt                                                                                             >  1:183805/1‑139 (MQ=255)

                                             aGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGTCCCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAAt                                                                                      <  2:1434062/139‑1 (MQ=255)

                                              gTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATcg                                                                                    <  1:239565/139‑1 (MQ=255)

                                                  cATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACt                                                                                                         >  2:937810/1‑114 (MQ=255)

                                                  cATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACt                                                                                                         <  1:937810/114‑1 (MQ=255)

                                                    tCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGt                                                                              <  1:894016/139‑1 (MQ=255)

                                                    tCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGt                                                                              <  1:831260/139‑1 (MQ=255)

                                                     cgcgGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCg                                                                                                       >  2:607916/1‑113 (MQ=255)

                                                     cgcgGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCg                                                                                                       <  1:607916/113‑1 (MQ=255)

                                                              aCTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCa                                                                    <  1:534547/139‑1 (MQ=255)

                                                                ttGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGt                                                                  <  2:527662/139‑1 (MQ=255)

                                                                  ggCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCg                                                                                                    <  1:1691643/103‑1 (MQ=255)

                                                                  ggCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCg                                                                                                    >  2:1691643/1‑103 (MQ=255)

                                                                        atGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCgcggc                                                                                <  2:683555/117‑1 (MQ=255)

                                                                        atGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCgcggc                                                                                >  1:683555/1‑117 (MQ=255)

                                                                        atGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGtaa                                                            >  1:278484/1‑137 (MQ=255)

                                                                        atGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGtaa                                                            <  2:278484/137‑1 (MQ=255)

                                                                          gcgcAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATaaa                                                        >  2:907536/1‑139 (MQ=255)

                                                                                   tgGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCgcgc                                                                                                                                <  2:330078/58‑1 (MQ=255)

                                                                                   tgGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCgcgc                                                                                                                                >  1:330078/1‑58 (MQ=255)

                                                                                   tgGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCgcgc                                                                                                                                <  2:603269/58‑1 (MQ=255)

                                                                                   tgGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCgcgc                                                                                                                                >  1:603269/1‑58 (MQ=255)

                                                                                   tgGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGt                                                                  >  2:412294/1‑120 (MQ=255)

                                                                                   tgGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGt                                                                  <  1:412294/120‑1 (MQ=255)

                                                                                   tgGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTc                                                                 >  1:1683908/1‑121 (MQ=255)

                                                                                   tgGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTc                                                                 <  2:1683908/121‑1 (MQ=255)

                                                                                     gCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGa                                             >  1:1270464/1‑139 (MQ=255)

                                                                                        aTTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAgg                                          <  1:1012641/139‑1 (MQ=255)

                                                                                          ttCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACt                                                                                                         <  2:1508206/74‑1 (MQ=255)

                                                                                          ttCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACt                                                                                                         >  1:1508206/1‑74 (MQ=255)

                                                                                                  gcgcGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGt                                                                  >  1:1090816/1‑105 (MQ=255)

                                                                                                  gcgcGTCAGGTCTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCTAGt                                                                  <  2:1090816/105‑1 (MQ=255)

                                                                                                   cgcgTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTcgcg                                                                                                                                 <  1:704820/41‑1 (MQ=255)

                                                                                                   cgcgTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTcgcg                                                                                                                                 >  2:704820/1‑41 (MQ=255)

                                                                                                    gcgTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAGGTCACATCCGCCa                              <  2:1270464/139‑1 (MQ=255)

                                                                                                     cgTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACt                                                                                                         >  1:1042104/1‑63 (MQ=255)

                                                                                                     cgTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACt                                                                                                         <  2:1042104/63‑1 (MQ=255)

                                                                                                           gTTTTACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAGGTCACATCCGCCATCGTGcc                       <  1:603476/139‑1 (MQ=255)

                                                                                                             tttACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTc                                                                 <  2:1615348/95‑1 (MQ=255)

                                                                                                             tttACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTc                                                                 >  1:1615348/1‑95 (MQ=255)

                                                                                                              ttACCAGT‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAGGTCACATCCGCCATCGTGCCAcc                    <  2:183805/139‑1 (MQ=255)

                                                                                                                     t‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCgcggc                                                                                <  1:88222/72‑1 (MQ=255)

                                                                                                                     t‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCgcggc                                                                                >  2:88222/1‑72 (MQ=255)

                                                                                                                     t‑CCGCACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAGGTCACATCCGCCATCGTGCCACCCGCCGtc             >  2:6391/1‑139 (MQ=255)

                                                                                                                          cACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATcg                                                                                    >  2:64857/1‑64 (MQ=255)

                                                                                                                          cACTGAATGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATcg                                                                                    <  1:64857/64‑1 (MQ=255)

                                                                                                                               aaTGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAGGTCACATCCGCCATCGTGCCACCCGCCGTCTCGATCAcc    >  1:306034/1‑139 (MQ=255)

                                                                                                                               aaTGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAGGTCACATCCGCCATCGTGCCACCCGCCGTCTCGATCAcc    >  1:127289/1‑139 (MQ=255)

                                                                                                                                 tGCAGAGTCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAGGTCACATCCGCCATCGTGCCACCCGCCGTCTCGATCACCtt  >  2:204816/1‑139 (MQ=255)

AACACCACTACGGGCGCATCAGCATAAGGGGGAGGTGAGAGTGAAAGTTTCATCGCGGCCTCACTTGGCGATATGCGCAATTGTGGCGATTTCCACCAGCGCGTCAGGTTTTACCAGT‑CCGCACTGAATGCAGAATCGCGCCGGTTTATCACCCGGAAAAAACTCGGCGTAGATTTCGTTAATCGCGGCGTAATTTTTCCAGTCGGTAATAAAGATGCTGTTGAAGGTCACATCCGCCATCGTGCCACCCGCCGTCTCGATCACCTT  >  NC_000913/1071713‑1071979

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `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