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
A16 F20 I0 R1	52	51.1	1736300	96.9%	1682474	149.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP009273	2,870,339	G→A	37.7%	G134S (GGC→AGC)	iap →	aminopeptidase in alkaline phosphatase isozyme conversion

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	2,870,339	0	G	A	37.7%	37.4 / 37.0	50	G134S (GGC→AGC)	iap	aminopeptidase in alkaline phosphatase isozyme conversion
Reads supporting (aligned to +/- strand): ref base G (19/12); new base A (12/7); total (31/19)
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

ATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGACCAGCGGCGAAGAGGAAGGGAAATTAGG  >  CP009273/2870202‑2870481

ttCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACg                                                                                                                                     <  1:543878/148‑1 (MQ=255)

             gCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATgg                                                                                                                        <  1:597739/149‑1 (MQ=255)

                   cGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATGATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATa                                                                                                                  >  2:795531/1‑149 (MQ=255)

                       aCGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAAcgc                                                                                                              <  2:225005/149‑1 (MQ=255)

                         gggAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCACGCTGAGCGATGCTGACGCCGATGCCGATCTCAGCGGGCTGAGGATACAAGGAAGGGATGAAAAcgccg                                                                                                            >  1:333321/1‑149 (MQ=255)

                         gggAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGACGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTAAAAGGAATGGATGATAAagccg                                                                                                            >  1:2733/1‑149 (MQ=255)

                               tACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCCCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGAAGGtt                                                                                                      >  1:273511/1‑149 (MQ=255)

                                   ggtaTTGCCGCTCACGAAGGCAAATCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAgg                                                                                                  <  2:291659/146‑1 (MQ=255)

                                    tGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATGATCATTATGGCGCATCTGGATACTTGCGCCCCGCTGAGCGATGCTGACGCAGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGgt                                                                                                 >  2:562593/1‑149 (MQ=255)

                                          ccGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATg                                                                                           >  2:780472/1‑149 (MQ=255)

                                          ccGCTCATGAAGGCAAAGCGCAGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTTGACGGGCTGACGTTACAAGGACTGGATGATAACGCCGCAGGTTTAGGTGTCATg                                                                                           >  1:480393/1‑149 (MQ=255)

                                                 tGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAAt                                                                                    <  1:665836/149‑1 (MQ=255)

                                                       cAAGGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAg                                                                              <  2:415293/149‑1 (MQ=255)

                                                       cAAAGCGCCGCAGCAGATCAACATTATGGCGTATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAg                                                                              <  2:847989/149‑1 (MQ=255)

                                                          aGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAAc                                                                           >  2:53894/1‑149 (MQ=255)

                                                          aGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCACGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAGTTGGCAGAAc                                                                           >  2:855329/1‑149 (MQ=255)

                                                              ccgcAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCAAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCt                                                                       >  1:333167/1‑149 (MQ=255)

                                                               cgcAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGGTTAGGTGTCATGATGGACTTGGCAGAACGccgg                                                                      >  1:352442/1‑147 (MQ=255)

                                                                 cagcagATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGaa                                                                    >  1:513950/1‑149 (MQ=255)

                                                                 cagcagATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGaa                                                                    >  1:256613/1‑149 (MQ=255)

                                                                 cagcagATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCGGaa                                                                    >  1:852309/1‑149 (MQ=255)

                                                                 cagcagATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGCTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGaa                                                                    >  1:492880/1‑149 (MQ=255)

                                                                       atcatcATTATGGCGCAGCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGACGATAACGCCGAAGGATTAAGTGTAAGGCTGGACGTGGGCGAAGGCCAGaaaaaggg                                                              >  1:677886/1‑146 (MQ=255)

                                                                        tcataaTTATCGCGCATCTGGATACTTCCGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACg                                                             <  1:783324/149‑1 (MQ=255)

                                                                        ccctcatTTTGGCGCACCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGGTACAAGGAATGGATGATAACGCCGCAGGTGTAGGTGACCGGCTGGAACTGGCAGAACGCCTGAAAAATACg                                                             <  1:405192/146‑1 (MQ=255)

                                                                          atcatTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGcc                                                           >  2:294712/1‑149 (MQ=255)

                                                                              ttATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGCCGTGACAAGGAATGGATGATAACGCCGGAGGTTTAGGGTTCGTGCTGGAATTGGCAGCACGACTGAAAAATACGCCTaag                                                       >  1:240303/1‑147 (MQ=255)

                                                                                 gggCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATACCGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAGAATACGCCTACCGAg                                                    <  1:484545/148‑1 (MQ=255)

                                                                                   gcgcATCTGGATACTTACGCCCCGCTGAGTGATGCTGCCGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGACGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTa                                                  >  2:564233/1‑149 (MQ=255)

                                                                                   gcgcATCTGGATACTTACGCCCCGCTGAGGGATGCTGACGCGGATGCCAATCTCAGCGGGCTGACGTTACAAGGGATGGATGATAACGCCGCAGGTTTAGGTGTGATGATGGAATTGGGAGAGGGTCTGAAAAGTGTGCCTACTGAGTa                                                  >  1:731980/1‑149 (MQ=255)

                                                                                   gcgcATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACCAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTCCCGAgaa                                                  >  1:353342/1‑147 (MQ=255)

                                                                                   gcgcATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAACATACGCCTACCGAgaa                                                  >  1:470955/1‑147 (MQ=255)

                                                                                     gcATCTGGATAGTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTAATGCTGGCATTGGCAGAACGCCCGAAAAAGACGCCTACCGAGTagt                                                >  1:362126/1‑147 (MQ=255)

                                                                                     gcATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCGGAAAAATACGCCTACCGAGTATg                                                >  1:718984/1‑149 (MQ=255)

                                                                                       aTCTGGATACTTACGCCCCGCTGGGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGt                                              <  1:860456/149‑1 (MQ=255)

                                                                                        tCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTa                                             >  2:700552/1‑149 (MQ=255)

                                                                                             gtACTTACGCCCCGCTGAGCGATGCTGACGCCGCTGCCAATCGCAGCGGGCTGACGTTACAAGGAATGGATGCTAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCGACCGAGTATGGTATTCGa                                        <  1:121790/148‑1 (MQ=255)

                                                                                             aTACTTACGCCCCGCTGAGCGATGCGGACGCCGATGCCAATCGCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGa                                        <  2:78795/149‑1 (MQ=255)

                                                                                                cTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGCATGGGATTCGAttt                                     >  1:855228/1‑149 (MQ=255)

                                                                                                 ttACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGGATGGTATTCGATTtg                                    >  2:370336/1‑149 (MQ=255)

                                                                                                   tcGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTtgtg                                  <  2:39477/148‑1 (MQ=255)

                                                                                                       cccGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGa                              >  1:721726/1‑149 (MQ=255)

                                                                                                       cccGCGGAGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCTTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGa                              <  1:186112/149‑1 (MQ=255)

                                                                                                              aGCGATGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGGAGGTTTAGGTTTTATGCGGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGACCAgcgg                       >  1:357267/1‑149 (MQ=255)

                                                                                                                  aggcgggcgtcgcggCCAATCGCGGCGGGCTGAGGTTACAAGGAATGGATGGTAACGCCGCAGGTTTAGGTGTCAGGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGACCAGCGGCGaa                   <  1:759775/135‑1 (MQ=255)

                                                                                                                  aTGCTGACGCCGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGACCAGCGGCGaa                   <  2:505479/149‑1 (MQ=255)

                                                                                                                            cGATGCCAATCTCAGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGACCAGCGGCGAAGAGGAAGGGa         >  2:332517/1‑149 (MQ=255)

                                                                                                                              aTGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGACCAGCGGCGAAGAGGAAGGGaaa       <  1:562593/149‑1 (MQ=255)

                                                                                                                                gCCAATCTCGGCGGGCTGACGTTACAAGGAATGGAAGTAAATGCGGCGGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACGGAGGATGGTATTCGATTTGTGGCGACCAGCGGCGAAGAGGAACGGgaagt     >  1:365493/1‑147 (MQ=255)

                                                                                                                                   aaTCTCGGCGGGCTGACGTTACAAGGATTGGATGATAACGCCGCAGGTTTAGGTGTCAGGCTGGAATTGGCAGACCGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGACCAGCGGCGAAGAGGAAGGGAAATTAgg  <  2:767382/149‑1 (MQ=255)

ATCGTAAGAGCTGGCATAACGTGACGGGAAGTACGGTGATTGCCGCTCATGAAGGCAAAGCGCCGCAGCAGATCATCATTATGGCGCATCTGGATACTTACGCCCCGCTGAGCGATGCTGACGCCGATGCCAATCTCGGCGGGCTGACGTTACAAGGAATGGATGATAACGCCGCAGGTTTAGGTGTCATGCTGGAATTGGCAGAACGCCTGAAAAATACGCCTACCGAGTATGGTATTCGATTTGTGGCGACCAGCGGCGAAGAGGAAGGGAAATTAGG  >  CP009273/2870202‑2870481

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A