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
A4 F50 I2 R1	104	44.1	1376607	98.9%	1361464	150.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,690,469	A→G	R210R (CGT→CGC)	glrK ←	sensor protein kinase regulating glmY sRNA in two‑component system with response regulator GlrR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,690,469	0	A	G	97.7%	139.4 / ‑6.3	43	R210R (CGT→CGC)	glrK	sensor protein kinase regulating glmY sRNA in two‑component system with response regulator GlrR
Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (16/26); total (17/26)
Fisher's exact test for biased strand distribution p-value = 3.95e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

CATGAGATAAATGTCTTAAAAATTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGACGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAATATTGCCCACGTTCGGCGATTTCA  >  NC_000913/2690321‑2690601

cATGAGATAAATGTCTTAAAAATTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCg                                                                                                                                    >  2:621745/1‑151 (MQ=255)

   gagaTAAATGTCTTAAAAATTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGtt                                                                                                                                 >  2:94761/1‑151 (MQ=255)

    agaTAAATGTCTTAAAAATTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTg                                                                                                                                <  1:620822/151‑1 (MQ=255)

      aTAAATGTCTTAAAAAGTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGAt                                                                                                                              <  1:567454/151‑1 (MQ=255)

        aaaTGTCTTAAAAATTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATc                                                                                                                             >  1:220210/1‑150 (MQ=255)

          aTGTCTTAAAAATTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAAGACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATg                                                                                                                          <  1:408517/151‑1 (MQ=255)

             tCTTAAAAATTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCAt                                                                                                                           >  1:542942/1‑147 (MQ=255)

              cTTAAAAATTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCt                                                                                                                      >  1:433353/1‑151 (MQ=255)

                 aaaaaTTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCg                                                                                                                    >  1:28409/1‑150 (MQ=255)

                  aaaaTTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGat                                                                                                                  <  2:470146/151‑1 (MQ=255)

                         aTGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTAGATAttttt                                                                                                            >  1:688217/1‑150 (MQ=255)

                               ttGGGATTCCAGCCATGACAGGCGCGCACTTAACCAAAGAATACGTTGCCCAACCGAGCGAAACTCGCTCGGTCCACTGAAAGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGACGGTTGATCCTGCGCTCGAAATTTTTCACCGGc                                                                                                     >  1:29502/1‑151 (MQ=255)

                                   gATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGa                                                                                                 <  2:224480/151‑1 (MQ=255)

                                       ccAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATaa                                                                                              <  1:286129/150‑1 (MQ=255)

                                           ccATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAatcatc                                                                                         <  2:28167/151‑1 (MQ=255)

                                                       cTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGc                                                                             >  2:436159/1‑151 (MQ=255)

                                                         cACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAg                                                                           <  2:49773/151‑1 (MQ=255)

                                                             tAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTa                                                                         <  1:367876/149‑1 (MQ=255)

                                                             tAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTAc                                                                        <  2:152267/150‑1 (MQ=255)

                                                              aaCCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTAcc                                                                       >  2:15680/1‑150 (MQ=255)

                                                                ccAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCAtt                                                                    <  1:78210/151‑1 (MQ=255)

                                                                          cGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCa                                                          <  2:282704/151‑1 (MQ=255)

                                                                              gCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCa                                                       <  1:600430/150‑1 (MQ=255)

                                                                                  aaCCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAAt                                                  <  2:685076/151‑1 (MQ=255)

                                                                                   aCCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAAt                                                  >  1:313281/1‑150 (MQ=255)

                                                                                   aCCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAAt                                                  >  2:134259/1‑150 (MQ=255)

                                                                                            aaCTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGc                                         <  1:69571/150‑1 (MQ=255)

                                                                                                cgctcgGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGAtt                                     <  2:513438/150‑1 (MQ=255)

                                                                                                cgctcgGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTg                                    >  2:661841/1‑151 (MQ=255)

                                                                                                     ggTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATCTTTTTCAACGGCCCGATACTCATCCGCGTGAAAAGCTGTACCATTACCAGACTCACCAGAAATAACACCAGCGATTGccaa                                >  1:486568/1‑150 (MQ=255)

                                                                                                      gTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGccaacc                              <  2:670723/151‑1 (MQ=255)

                                                                                                      gTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTAACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGccaacc                              >  2:654352/1‑151 (MQ=255)

                                                                                                           cTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGccaacca                             <  1:4083/147‑1 (MQ=255)

                                                                                                             gAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAata                        <  2:114028/150‑1 (MQ=255)

                                                                                                              aaCGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAatat                       <  1:581971/150‑1 (MQ=255)

                                                                                                               aCGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAATATTg                     <  1:248062/151‑1 (MQ=255)

                                                                                                                cGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAATATTGc                    >  1:20232/1‑151 (MQ=255)

                                                                                                                  agaCGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAATATTGccc                  >  2:542688/1‑151 (MQ=255)

                                                                                                                    aCGCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAATATTGCCCAc                <  2:49972/151‑1 (MQ=255)

                                                                                                                      gCTATTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAATATTGCCCACGt              <  2:507578/151‑1 (MQ=255)

                                                                                                                         aTTGCCCAGAGAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAATATTGCCCACGTTc            <  1:484069/150‑1 (MQ=255)

                                                                                                                                agagAACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAATATTGCCCACGTTCGGCGAttt    <  2:445830/151‑1 (MQ=255)

                                                                                                                                   gaACGCCCTTCCCCCAGGCGGTTGATCATGCGCTCGATATTTGTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTGCCAGACTCTCCAGAAATAGCTCCAGCGATTGCCAACCAATATATTGCCCACGTTCGGCGATTTCa  <  1:669123/150‑1 (MQ=255)

CATGAGATAAATGTCTTAAAAATTGATGGCGTTGGGATTCCAGCCATGACAGGCGCTCACTTAACCAAAGAATACGTTGCCCAACCGAGCGTAACTCGCTCGGTCCACTGAACGAGACGCTATTGCCCAGAGAACGCCCTTCCCCCAGACGGTTGATCATGCGCTCGATATTTTTCACCGGCCCGATAATCATCCGCGTGAAAAGCAGTACCATTACCAGACTCACCAGAAATAGCACCAGCGATTGCCAACCAAAATATTGCCCACGTTCGGCGATTTCA  >  NC_000913/2690321‑2690601

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A