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
A19 F91 I0 R1	49	33.8	1296440	89.8%	1164203	142.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,166,293	C→T	100%	A70V (GCC→GTC)	ndh →	NADH:quinone oxidoreductase II

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,166,293	0	C	T	89.0%	87.5 / 2.4	40	A70V (GCC→GTC)	ndh	NADH:quinone oxidoreductase II
Reads supporting (aligned to +/- strand): ref base C (1/4); new base T (20/15); total (21/19)
Fisher's exact test for biased strand distribution p-value = 1.72e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.99e-01
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

AGCTGGGGCATAAGCTGGGACGCAAGAAAAAAGCCAAAATTACGCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGCCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAACTGCTGGTTCCGGAACGTAAAATCGCCTAT  >  NC_000913/1166152‑1166429

aGCTGGGGCATATGCGTAGACGAAAGAAAAAAGCCAAAATTACGCTGGTCGAGGGTAACCACAGAATAGTGTGGAAGCTGCTGCTGCACGAAGTGGCGACTGGCTCTCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGcc                                                                                                                                         <  2:193064/143‑1 (MQ=255)

        taTAAGCTGGGACGCAAGAAAAAAGCCAAAATTTCGCTGGTCGAGCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATgcgcg                                                                                                                                 <  2:626978/142‑1 (MQ=255)

             gCTGGGACGCAAGAAAAAAGCCAAAATTACGCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATc                                                                                                                            >  1:91798/1‑143 (MQ=255)

                gagACGCAATAAAAGAGCCAAAATTACGCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGACGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATg                                                                                                                         <  2:380669/141‑1 (MQ=255)

                     gCAAGAAAAAAGCCAAAATTACGCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTttc                                                                                                                    <  1:309960/143‑1 (MQ=255)

                       aaGAAAAAAGCCAAAATTACGCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTttcca                                                                                                                  >  1:425923/1‑143 (MQ=255)

                                 ccAAAATTACGCTGGTCGATCGTAACCACAGCCACCTGTAGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTg                                                                                                        >  2:363347/1‑143 (MQ=255)

                                  cAAAATTACGCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGCCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTgg                                                                                                       <  1:371050/143‑1 (MQ=255)

                                   aaaaTTACGCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGCCCATGCGCGCAGTCATGGTTTCAAGTTCCAGCTggg                                                                                                      >  2:165492/1‑143 (MQ=255)

                                     aaTTACGCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTGCGTGCGCGCAATCATGGTTTCCAGTGCCGGGTGGGtt                                                                                                    >  1:413085/1‑143 (MQ=255)

                                       tgaCGCTGCTCGATGGTAACCACAGGCAGATGGGGAAACCGCTGCGGCACGAAGTGGGGACTGGCGCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTcc                                                                                                  <  1:173156/141‑1 (MQ=255)

                                           gCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCa                                                                                              >  1:268676/1‑143 (MQ=255)

                                             tGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGCAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCCATCATGGTTTCCAGTTCCAGCCGGGTTCCGTCatt                                                                                            >  2:605271/1‑143 (MQ=255)

                                                  gATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCattgatat                                                                                       >  1:93609/1‑143 (MQ=255)

                                                    tCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCCCGATCCTGGTTTCCAGATCCCGCTCGGTTCCCTCcttgctattg                                                                                     >  2:529455/1‑143 (MQ=255)

                                                        aaCCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGGCATTGCTATTGGTCg                                                                                 >  1:103397/1‑143 (MQ=255)

                                                            acgtcgaCCTGCGGAAACCGCTGCTGCACGAAGTTGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGaa                                                                             <  1:52510/137‑1 (MQ=255)

                                                            acaGGCACCGGTGGTAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGaa                                                                             <  2:452278/143‑1 (MQ=255)

                                                                  aCCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGaaa                                                                       <  1:621134/143‑1 (MQ=255)

                                                                   ccggtgGCAACGGCTGCTGCCCGCAGTGGCGACTGGTTCGCCTGATGAAGGCGTCGATGCGTTGAGCTATCGGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGaaaa                                                                      <  2:405198/140‑1 (MQ=255)

                                                                         gAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATCTTGATCGTGAAGCGACAACAATCa                                                                >  1:588807/1‑143 (MQ=255)

                                                                                cggctgcACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGCCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGc                                                         <  1:49078/141‑1 (MQ=255)

                                                                                        cGAAGTGGCGACGGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTgc                                                 <  1:200256/143‑1 (MQ=255)

                                                                                         gAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCACGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCAAAAACAATCACTATTGCAGAACTgca                                                >  2:581697/1‑142 (MQ=255)

                                                                                              ggCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGGCACTCATATGGAAAGTGAAGCGACAACAATCACCATGGCAGAACCGCGcgacg                                           >  2:157329/1‑143 (MQ=255)

                                                                                                    tGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCCGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGAAGAACTGCGCGACGAGAAAg                                     >  1:78570/1‑143 (MQ=255)

                                                                                                      gCTCGCTTGGTGAGGGCGCCGATGTGTTGCGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCAGTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGt                                   <  2:92342/143‑1 (MQ=255)

                                                                                                      gCTCGCTTGATGAAGGCGTAGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGt                                   <  2:481508/143‑1 (MQ=255)

                                                                                                        tCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGTGCGACGAGAAAGGTGa                                 >  1:282719/1‑143 (MQ=255)

                                                                                                           cTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTACCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAAGCACTATTGCAGGACTGCGCGACGAGAGAGGTGAAca                              >  1:159478/1‑142 (MQ=255)

                                                                                                            gtgatgaAGGCGTCGATGCGTTGAGCTATCTGGCCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAActg                             <  1:320734/142‑1 (MQ=255)

                                                                                                              gatgaAGGCGTCGATGCGTTGAGCTATCTGGTCCATCCGCGCAATCATGGTTTCCAGTCCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAActgct                           <  1:278642/143‑1 (MQ=255)

                                                                                                               atgaAGGCGTCGATGCGTTGAGCTATAAGGCCCGCGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAActgctg                          <  1:500822/143‑1 (MQ=255)

                                                                                                                tgaAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGCACTGCGCGACGAGAAAGGTGAACTGCTgg                         >  2:390863/1‑143 (MQ=255)

                                                                                                                 gaAGGCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAACACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAACTGCTgga                        >  2:276923/1‑142 (MQ=255)

                                                                                                                     gCGTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAACTGCTGGTTCCg                    >  1:598834/1‑143 (MQ=255)

                                                                                                                      cGTCGATGCCTTGATCTTTCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATCGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAACTGCTGGTTCCgg                   <  2:50171/143‑1 (MQ=255)

                                                                                                                       gTCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAACTGCTGGTTCCGGa                  >  1:577931/1‑143 (MQ=255)

                                                                                                                        tCGATGCGTTGAGCTATCTGGTCCATGCGCGCAATCGTGGTTGCCATTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAACTGCTGGTTCCGGaa                 <  1:363347/143‑1 (MQ=255)

                                                                                                                                     cTATCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGCTCGTGAGGCTAAAACAACAATGGGGGTTGTATTGCTCGACGAGAAAGGTGAACTGCTGGTTCCGGAACGTAAAATCGCCt    <  1:298596/143‑1 (MQ=255)

                                                                                                                                       aTCTGGTCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAACTGCTGGTTCCGGAACGTAAAAACGCCTAt  >  2:172422/1‑143 (MQ=255)

AGCTGGGGCATAAGCTGGGACGCAAGAAAAAAGCCAAAATTACGCTGGTCGATCGTAACCACAGCCACCTGTGGAAACCGCTGCTGCACGAAGTGGCGACTGGCTCGCTTGATGAAGGCGTCGATGCGTTGAGCTATCTGGCCCATGCGCGCAATCATGGTTTCCAGTTCCAGCTGGGTTCCGTCATTGATATTGATCGTGAAGCGAAAACAATCACTATTGCAGAACTGCGCGACGAGAAAGGTGAACTGCTGGTTCCGGAACGTAAAATCGCCTAT  >  NC_000913/1166152‑1166429

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