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
A2 F107 I1 R1	11	42.4	1464626	94.8%	1388465	142.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,020,961	A→G	intergenic (‑42/‑177)	sulA ← / → sxy	SOS cell division inhibitor/CRP‑S‑dependent promoter expression factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,020,961	0	A	G	95.6%	138.1 / ‑6.5	46	intergenic (‑42/‑177)	sulA/sxy	SOS cell division inhibitor/CRP‑S‑dependent promoter expression factor
Reads supporting (aligned to +/- strand): ref base A (1/0); major base G (25/18); minor base T (2/0); total (28/18)
Fisher's exact test for biased strand distribution p-value = 5.09e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATAAGCCCGGCTGTAGTGTTTTCCGTAGAGACACGCGCAATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTACATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTCGTAGTTAACGGATCCGTTAAT  >  NC_000913/1020822‑1021097

atgggCCCGGCTGTAGTGGTTTCGGTAGAGAGACGCGCAATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCAt                                                                                                                                       <  2:497057/139‑1 (MQ=255)

aTAAGCCCGGCTGTAGTGTTTTCCGTAGAGACACGCGCAATTTTACTTGCTGCGGATGAGAACGGCGAAGAACGATGTGCATAGCCTGGAGTGTCCATAATAAATACCCCCCTTCGGGGGTACTATATGGATGTACAGTTCAt                                                                                                                                       >  2:117567/1‑143 (MQ=255)

 tAAGCCCGGCTGTAGTGTTTTCCGTAGAGACACGCGCAATTTTACTTGCTGCGGTTGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATACTCAATCCAGCCCCTGTGAGTTACTGTATGGACgtacggtgcaga                                                                                                                                      >  1:380432/1‑141 (MQ=255)

   aGCCCGGCTGTTGTGTTTTCCGTAGAGACACGCGCAATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCa                                                                                                                                    <  2:226382/143‑1 (MQ=255)

     cccGGCTGTAGTGTTTTCCGTAGAGACACGCGCAATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGt                                                                                                                                  >  1:395730/1‑143 (MQ=255)

        ggCTGTAGTGTTTTCCGTAGAGACACGCGCAATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGac                                                                                                                               >  2:376728/1‑143 (MQ=255)

          cTGGAGTGTTCTCCGTAGAGACACGCGCAATTTTACTTGCTGCGGATGAGAACGACGGAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGacaa                                                                                                                             <  2:340919/143‑1 (MQ=255)

                 gtTTTCCGTAGAGACACGCGCGATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGAt                                                                                                                      <  2:491252/143‑1 (MQ=255)

                          agagACACGCGCAATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCtct                                                                                                             >  2:98375/1‑141 (MQ=255)

                            agaCACGCGCAATTTTACTTGCTGTGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGGACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATACAGTGAGAACAAAGATCACCCCTAtgt                                                                                                           >  2:496175/1‑141 (MQ=255)

                            agaCACGCGCAATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGAATGCAGGGGCGACCAAGATTAACACTAttt                                                                                                           >  2:628537/1‑143 (MQ=255)

                                acGCGCAATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCgg                                                                                                       >  1:582483/1‑143 (MQ=255)

                                       atttgatgtgctgcGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGAATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGc                                                                                                <  2:103469/135‑1 (MQ=255)

                                        ttttACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGcc                                                                                               >  1:660947/1‑143 (MQ=255)

                                              ttGCTGCGGATGAGAACGACGCAGAACGATGTGCATAGCCGGAAGTGTACATACTTATTAAAACCCCGGCGAAATGGCAGAGGGATGTACAGTTCATCCAGTGACAGCAAGGATCAAGCCTATTTTCGGAAAGCGCCTCGccc                                                                                         >  2:711189/1‑141 (MQ=255)

                                              ttGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGCAACAGCCCCGCaa                                                                                         >  2:714649/1‑143 (MQ=255)

                                              ttGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCaa                                                                                         >  2:590479/1‑143 (MQ=255)

                                                  tgcGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAAttt                                                                                     >  2:580775/1‑143 (MQ=255)

                                                   gcGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTTTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGTATGTACAGTGTATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAAtttt                                                                                    <  2:566341/143‑1 (MQ=255)

                                                                  gaagaaCGATGTGCATGTCCGGAAGTGTAAACAAACAAACCAGCCCCTGTGAGTTACTGTATTGATATACAGTACATCCACTGACAACAAAGATCAACCCTACTTTCGCCAAGACCCTCGCAAATCTTATCGTTGTTGACggg                                                                     >  2:522050/1‑143 (MQ=255)

                                                                  gaagaaCGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACggg                                                                     >  1:387041/1‑143 (MQ=255)

                                                                        cGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACa                                                               <  1:376728/143‑1 (MQ=255)

                                                                         gatgttggtgggcTGAAGTGTACATAATCAATCCAGCCCGTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACAt                                                              <  2:728513/131‑1 (MQ=255)

                                                                           tgtgCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATaa                                                            <  1:272417/143‑1 (MQ=255)

                                                                                  aGCCTGAAGTCTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATc                                                     <  1:209395/143‑1 (MQ=255)

                                                                                      tGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGc                                                 >  1:341683/1‑143 (MQ=255)

                                                                                      tGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGc                                                 <  1:394717/143‑1 (MQ=255)

                                                                                      tGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGc                                                 >  1:68876/1‑143 (MQ=255)

                                                                                      tGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCGATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAACACATCAATTAATCTTGc                                                 >  1:367098/1‑143 (MQ=255)

                                                                                           tgtACATAATCAATCCAGCCCCTGTGAGCTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTCTCGGAACGAGCCGCGCCACGTTTGACGGCCGTGACGGGCAAACACGAAGTAAtgccccccctt                                            >  2:306978/1‑133 (MQ=255)

                                                                                            ggaCAAAATGAACCCAAGCCCTGTGAGTTACTGTACGGACGTCCAGTGCATCCAGTGACAACAAAGATCAACCCACAGATCGGATAGAGCCGCGCAAATTTTGGCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTa                                           <  1:103302/141‑1 (MQ=255)

                                                                                              aCATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAg                                         >  1:591612/1‑143 (MQ=255)

                                                                                               cATAATCTATCCAGCCCCTGTGAGTTACTGTATGTATGTACAGGGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAACGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGa                                        <  2:501892/143‑1 (MQ=255)

                                                                                               cATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACACTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGa                                        <  2:569196/143‑1 (MQ=255)

                                                                                                   atcaatcCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTCGTGACCGGAAAACATAAATTAATCTTGCCCCTAAAGAGTaa                                    >  2:205479/1‑143 (MQ=255)

                                                                                                      aatcCAGCCCCTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGtt                                 <  1:259223/143‑1 (MQ=255)

                                                                                                                cTGTGAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGGTGCCTATTTTc                       >  1:519308/1‑143 (MQ=255)

                                                                                                                cTGCGAGTTCCTGGATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTc                       <  2:387041/143‑1 (MQ=255)

                                                                                                                 tgtgAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGCACCTCGCAAATAATGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGACTAAGTTGCCTATTTTCg                      >  2:440135/1‑143 (MQ=255)

                                                                                                                   tgAGTTACTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTCGTa                    <  1:580775/143‑1 (MQ=255)

                                                                                                                         aCTGTATGGATGTACAGTGCATCCAGTGACACCAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCCAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCATTAAGAATAAGTTGCATATTTTCGTAGTTAAc              >  2:267131/1‑143 (MQ=255)

                                                                                                                         aCTGTATGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCATTAAGAATACGTTGCCTATTTTCATTGTTAAc              >  2:578956/1‑143 (MQ=255)

                                                                                                                              aTGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTCGTAGTTAACGGATc         >  2:199357/1‑143 (MQ=255)

                                                                                                                               tGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAGGTTTTAGTTGCCTATTTTCGTAGTTAACGGATcc        >  1:492959/1‑143 (MQ=255)

                                                                                                                               tGGATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTCGTAGTTAACGGATcc        >  2:261734/1‑143 (MQ=255)

                                                                                                                                ggATGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTCGTAGTTAACGGATCCg       >  1:634011/1‑143 (MQ=255)

                                                                                                                                   tGTACAGTGCATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTCGTAGTTAGCGGATCCGTTa    <  1:371133/143‑1 (MQ=255)

                                                                                                                                     tacagtgcaTCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTACGAATAAGTTGCCTATTTACGTAGTTAACGGGTCCGTTAAt  >  2:98373/1‑143 (MQ=255)

                                                                                                                                     tacagtgcaTCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTCGTAGTTAACGGATCCGTTAAt  >  2:490243/1‑143 (MQ=255)

                                                                                                                                     aacagtgcaTCCAGCGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTTACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTCGTAGTTAACGGATCCGTTAAt  <  1:213957/142‑1 (MQ=255)

ATAAGCCCGGCTGTAGTGTTTTCCGTAGAGACACGCGCAATTTTACTTGCTGCGGATGAGAACGACGAAGAACGATGTGCATAGCCTGAAGTGTACATAATCAATCCAGCCCCTGTGAGTTACTGTATGGATGTACAGTACATCCAGTGACAACAAAGATCAACCCTATTTTCGGAAAGAGCCTCGCAAATTTTGTCGTTGGTGACGGGAAAACATAAATTAATCTTGCCCCTTAAGAATAAGTTGCCTATTTTCGTAGTTAACGGATCCGTTAAT  >  NC_000913/1020822‑1021097

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