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
A3 F108 I2 R1	19	69.6	2506112	90.8%	2275549	142.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,196,305	C→T	R395C (CGT→TGT)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,196,305	0	C	T	98.2%	162.3 / NA	56	R395C (CGT→TGT)	icd	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (36/19); minor base G (1/0); total (37/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTAACGGTT  >  NC_000913/1196165‑1196444

aGGACAAAGTCAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGCAGGACCTAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAgtgt                                                                                                                                           <  2:751292/143‑1 (MQ=37)

aGGACAAAGGTGATCCTGACTTGATTATTCTCGCCGCTGAGATGATGCTGCGCCACATGGGTTCGACCGAAGCGGCTGACTTAATTGTTAAATGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAgtgt                                                                                                                                           <  2:75731/143‑1 (MQ=255)

  gACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAAGCGTAGGCTATGGCTTCGAGTGTCt                                                                                                                                         >  1:517901/1‑143 (MQ=37)

  gACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCt                                                                                                                                         >  1:394752/1‑143 (MQ=255)

  gACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCt                                                                                                                                         >  2:292763/1‑143 (MQ=255)

    cataGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTga                                                                                                                                       <  1:624026/140‑1 (MQ=255)

     aaaGTAAATCCTGGCTCTATTATTCTCTGCGCTCGGATCATACTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTgat                                                                                                                                      <  1:227871/143‑1 (MQ=25)

         tgaaTCCTGGCTCTAGTAGTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTgatggat                                                                                                                                  <  2:920817/141‑1 (MQ=255)

                tGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGGCCTCGAGTATATGACGGATGGCGCTa                                                                                                                           >  2:110811/1‑143 (MQ=25)

                  gCTCTATTATTCGCTCCGCTGAGATGATGCTGCGCCACAGGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGCATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTaaa                                                                                                                         <  2:29042/143‑1 (MQ=255)

                    tctATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAAct                                                                                                                       >  1:758769/1‑143 (MQ=255)

                     ctactaTTCTCTCCGCGGAGATGACGCGGCGCCACACGGGTTGGACCGAAGCGGCTTACTTAATTGTTACAGGTATGGAAGGCGCAATCCACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAActg                                                                                                                      <  2:797928/143‑1 (MQ=21)

                       attattCTCTCCGCTGAGATGATGCTGCGCCACATTGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAActgct                                                                                                                    >  1:531766/1‑143 (MQ=255)

                        ttattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAActgctg                                                                                                                   <  1:299071/143‑1 (MQ=255)

                            tctctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGCTAAAGGTATGGAAGGCGCAACCAACGCGAACACCGTAACCGATGACTTCGAGTGTCTGAGGGATGGCGCTAAGctgctgcagc                                                                                                               >  2:867674/1‑139 (MQ=18)

                              tctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGt                                                                                                             <  1:549801/143‑1 (MQ=255)

                                   gCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCaga                                                                                                        <  1:1242782/143‑1 (MQ=255)

                                   gCTGAGATGATGCTGCGCCACATGGATTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAAGCGCAATCAACCCGAAAACCGTAACCAATGACTTCGAGTGTCTGATGGATGACGCTAAACTGCCGAAAAGtgtaga                                                                                                        >  2:678408/1‑138 (MQ=255)

                                    cTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGGATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGGTGGCGCTAAACTGCTGCCATGTGCggag                                                                                                       >  2:1039415/1‑143 (MQ=255)

                                         atgatgCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTgg                                                                                                  <  1:920396/143‑1 (MQ=255)

                                          ggatgCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGt                                                                                                 <  1:1034147/142‑1 (MQ=255)

                                           gatgCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTCAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTGGGTg                                                                                                >  2:1170888/1‑143 (MQ=255)

                                           gatgCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGCACTGTTCAGAGTTTGGTg                                                                                                >  1:63698/1‑143 (MQ=255)

                                                  cgcCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGat                                                                                         >  2:172003/1‑143 (MQ=255)

                                                   ggcgcaTGCGTTGGCCCGAAGCGGCTGACTTACTTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTACCCTATGACTTCGAGTGTCTGATGCATGGCGACAAACTGCTGCACTGTTCAGAGTTTGGTGACGCGatc                                                                                        <  1:295702/139‑1 (MQ=18)

                                                    ccACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTGCAGCGTTTGGTGACGCGacca                                                                                       >  2:739420/1‑143 (MQ=255)

                                                     cacaTGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGatcat                                                                                      >  1:238010/1‑143 (MQ=255)

                                                           gggtGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaaa                                                                                <  2:1027499/140‑1 (MQ=255)

                                                                 aCCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGGGTCTGATGGATGGCGCTAAACTGCTGAAATGGTCAGAGTTTGGTGACGCGATCATGGAAAACATGTa                                                                          >  2:838299/1‑143 (MQ=255)

                                                                    gAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAGACATGTAATg                                                                       >  1:418815/1‑143 (MQ=255)

                                                                     aaGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGc                                                                      >  2:773027/1‑143 (MQ=255)

                                                                         ggCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTAGAGTGTCTGATGGATGGCGCTAAACTGCTGAACTGTTGCGAGTTTGGTGACGCGGTCATAGAAAACAGGTAAGGCCGTa                                                                  >  2:408798/1‑143 (MQ=18)

                                                                                ttAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTACTGCCGTAGTTTGtt                                                           >  2:1164554/1‑143 (MQ=255)

                                                                                   aTTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTaaa                                                        >  2:1117952/1‑143 (MQ=255)

                                                                                      gTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACCCGATCATCGAAAACATGTACTGCCGTAGTTTGTTACAtct                                                     >  2:311076/1‑141 (MQ=255)

                                                                                       ttAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATtta                                                    <  1:292763/143‑1 (MQ=255)

                                                                                         aaaGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttatt                                                  >  2:1122687/1‑143 (MQ=255)

                                                                                         aaaGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGATATTGTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttatt                                                  >  1:176756/1‑143 (MQ=21)

                                                                                             gTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGGTGGCGCTGAAATGCTGGAATGTTCAGAGTTTGGTGACGCGATCATCGCAAACAAGTAATGCAGAAGTTGGTTAAATTTATTAACg                                              >  2:1086588/1‑143 (MQ=18)

                                                                                             gTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACg                                              >  1:623210/1‑143 (MQ=255)

                                                                                               aTGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACgcg                                            >  2:185821/1‑141 (MQ=255)

                                                                                                  gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGc                                         >  1:56491/1‑143 (MQ=255)

                                                                                                  gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACAGCAGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGc                                         >  1:47718/1‑143 (MQ=255)

                                                                                                       cgcAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTatc                                    >  1:144519/1‑141 (MQ=255)

                                                                                                        gcAATCAACGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGGTTGTTAAATTTATTAACGGGAGCGTAACg                                   >  1:994491/1‑143 (MQ=255)

                                                                                                           aTCAACGCGAAACCCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTc                                <  1:61665/143‑1 (MQ=255)

                                                                                                              aaCGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCg                             <  1:773027/143‑1 (MQ=255)

                                                                                                              aaCGCGAAAACCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGAGCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTACCGCTCCCg                             >  2:172106/1‑143 (MQ=255)

                                                                                                                     aaaCCGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCGACACTGCTGAAATGTTCAGAGTTTGGGGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGtttt                      <  1:172003/143‑1 (MQ=255)

                                                                                                                        ccGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTACATTTATTTATGGGAGCGTAACGCCCACcttgtcaattc                   >  1:278221/1‑137 (MQ=21)

                                                                                                                         cGTAACCTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTAAGAGCTTGGTCACGCGTTCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTgc                  >  2:149146/1‑142 (MQ=255)

                                                                                                                           taagcggtGATTTGGAGTGTCTGCTTGATGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAGCGTGTAATGCCGTAGTTTGTTAAATTTATTAGCGGGAGCGTAACGCTCCCGTTGTTTTTTGTTa                <  2:7634/136‑1 (MQ=25)

                                                                                                                              ccTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAAGGCTCGCGTTGTTTTTTTGTAGgc             >  1:146354/1‑143 (MQ=25)

                                                                                                                              ccTATGACTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTCAGgc             >  2:800983/1‑143 (MQ=255)

                                                                                                                              ccTATAACTTCGAGTGTCTGATGGATGTCTCTAAACTGCTGAAATGTTCAAAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGgc             <  1:1040143/143‑1 (MQ=37)

                                                                                                                                     cTTCGAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGGTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTACGCTGCTAAc      >  1:656858/1‑143 (MQ=255)

                                                                                                                                      ttCGTGTGTCTGATGGATGGCGCTAATCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTAACg     <  1:861598/143‑1 (MQ=255)

                                                                                                                                         gAGTGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAATTATAATGTGAAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTAACGGtt  >  1:1183823/1‑143 (MQ=25)

AGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGGGAGCGTAACGCTCCCGTTGTTTTTTGTTAGGCTGCTAACGGTT  >  NC_000913/1196165‑1196444

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A