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	1,464,297	A→G	A253A (GCA→GCG)	paaX →	transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,464,297	0	A	G	100.0%	199.8 / NA	56	A253A (GCA→GCG)	paaX	transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (27/29); total (27/29)

CGCTGGTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCACACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAACTG  >  NC_000913/1464161‑1464408

cgcTGGTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGcgca                                                                                                               <  1:1121118/139‑1 (MQ=255)

    ggTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTgg                                                                                                           <  2:33430/139‑1 (MQ=255)

     gTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTggg                                                                                                          <  1:723288/139‑1 (MQ=255)

      tGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCTCTgggc                                                                                                         <  2:272746/139‑1 (MQ=255)

      tGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTgggc                                                                                                         <  2:1098995/139‑1 (MQ=255)

                 aaaGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACgg                                                                                              <  1:17530/139‑1 (MQ=255)

                      ggcggcAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGt                                                                                         >  2:1018165/1‑139 (MQ=255)

                        cggcAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCa                                                                                       >  2:598201/1‑139 (MQ=255)

                            aGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCtg                                                                                   <  1:1018165/139‑1 (MQ=255)

                            aGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCtg                                                                                   <  2:1399947/139‑1 (MQ=255)

                                     aaCCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAAc                                                                          >  1:1084319/1‑139 (MQ=255)

                                        cccGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGc                                                                                     <  1:1055768/125‑1 (MQ=255)

                                        cccGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGc                                                                                     >  2:1055768/1‑125 (MQ=255)

                                          cGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATAc                                                                                                <  2:1278094/112‑1 (MQ=255)

                                          cGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATAc                                                                                                >  1:1278094/1‑112 (MQ=255)

                                             aGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCa                                                                  <  1:599953/139‑1 (MQ=255)

                                             aGCGGGCA‑TTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAg                                                                 <  1:608101/139‑1 (MQ=255)

                                                 ggCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAgcgc                                                              >  1:988959/1‑139 (MQ=255)

                                                     tttCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAg                                                          <  1:598201/139‑1 (MQ=255)

                                                         atatTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGcc                                                      <  2:988959/139‑1 (MQ=255)

                                                            ttCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCctgc                                                   <  2:696572/139‑1 (MQ=255)

                                                                 cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCtg                                                                                   >  1:707286/1‑102 (MQ=255)

                                                                 cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCtg                                                                                   <  2:707286/102‑1 (MQ=255)

                                                                 cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTAt                                                                    >  1:100924/1‑117 (MQ=255)

                                                                 cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTAt                                                                    <  2:100924/117‑1 (MQ=255)

                                                                 cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCtt                                              <  2:1227168/139‑1 (MQ=255)

                                                                 cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCtt                                              >  1:871294/1‑139 (MQ=255)

                                                                 cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCtt                                              >  2:1137887/1‑139 (MQ=255)

                                                                    ttACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTAt                                                                    <  2:808273/114‑1 (MQ=255)

                                                                    ttACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTAt                                                                    >  1:808273/1‑114 (MQ=255)

                                                                      aCTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcg                                         <  2:1084319/139‑1 (MQ=255)

                                                                           tCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgt                                    >  2:673506/1‑139 (MQ=255)

                                                                            ccATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTa                                            <  2:1347965/130‑1 (MQ=255)

                                                                            ccATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTa                                            >  1:1347965/1‑130 (MQ=255)

                                                                                  ttATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGaa                             <  1:1137887/139‑1 (MQ=255)

                                                                                         cGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTg                      >  2:713265/1‑139 (MQ=255)

                                                                                           tgtCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGaa                    >  2:352368/1‑139 (MQ=255)

                                                                                                  cTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgtt                                   <  1:979000/117‑1 (MQ=255)

                                                                                                  cTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgtt                                   >  2:979000/1‑117 (MQ=255)

                                                                                                    tAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCtcggtc           <  2:871294/139‑1 (MQ=255)

                                                                                                            cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCtgctgc                                                >  2:604756/1‑94 (MQ=255)

                                                                                                            cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCtgctgc                                                <  1:604756/94‑1 (MQ=255)

                                                                                                            cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAAct   >  2:1143544/1‑139 (MQ=255)

                                                                                                            cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAAct   >  1:1336179/1‑139 (MQ=255)

                                                                                                            cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAAct   >  1:166818/1‑139 (MQ=255)

                                                                                                             aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAgcg                                                        <  2:1386687/85‑1 (MQ=255)

                                                                                                             aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAgcg                                                        >  1:1386687/1‑85 (MQ=255)

                                                                                                             aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCtc               <  2:651490/126‑1 (MQ=255)

                                                                                                             aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCtc               >  1:651490/1‑126 (MQ=255)

                                                                                                             aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAActg  >  2:361107/1‑139 (MQ=255)

                                                                                                             aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAActg  >  1:73465/1‑139 (MQ=255)

                                                                                                              ttgttgCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAg                                                                                      <  2:506321/54‑1 (MQ=255)

                                                                                                              ttgttgCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAg                                                                                      >  1:506321/1‑54 (MQ=255)

                                                                                                                                  tCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgtt                                   <  2:1183934/85‑1 (MQ=255)

                                                                                                                                  tCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgtt                                   >  1:1183934/1‑85 (MQ=255)

                                                                                                                                    cGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCa                                                                            >  2:230216/1‑42 (MQ=255)

                                                                                                                                    cGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCa                                                                            <  1:230216/42‑1 (MQ=255)

CGCTGGTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCACACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAACTG  >  NC_000913/1464161‑1464408

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A