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 F30 I1 R1	21	20.2	686622	99.1%	680442	139.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,767,214	C→A	intergenic (+35/‑7)	yibA → / → yibJ	putative lyase containing HEAT‑repeat/putative RHS domain‑containing protein YibJ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,767,214	0	C	A	96.8%	102.4 / ‑2.6	31	intergenic (+35/‑7)	yibA/yibJ	putative lyase containing HEAT‑repeat/putative RHS domain‑containing protein YibJ
Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (18/12); total (19/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.71e-01

AGGTGATAAAACGCTACTTCCTGTTTTAGATACTATGTTGTACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCCGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAACCAGATGGACCCGGTGTACACG  >  NC_000913/3767080‑3767349

aGGTGATAAAACGCTACTTCCTGTTTTAGATACTATGTTGTACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCAc                                                                                                                                    <  1:1154/140‑1 (MQ=255)

                                 tATGTTGTACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAAt                                                                                                   <  2:26342/140‑1 (MQ=255)

                                 tATGTTGTACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAAt                                                                                                   >  2:322182/1‑140 (MQ=255)

                                   tgttgtACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATcc                                                                                                 >  1:128700/1‑140 (MQ=255)

                                   tgttgtACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATcc                                                                                                 >  2:166614/1‑140 (MQ=255)

                                    gttgtACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCt                                                                                                <  1:245584/140‑1 (MQ=255)

                                      tgtACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTgg                                                                                              <  1:227677/140‑1 (MQ=255)

                                        tACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCt                                                                                            <  1:329836/140‑1 (MQ=255)

                                        tACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCt                                                                                            >  2:11804/1‑140 (MQ=255)

                                          cAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGa                                                                                          >  1:72431/1‑140 (MQ=255)

                                              tttGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCgg                                                                                      <  1:322182/140‑1 (MQ=255)

                                              tttGATGACAATGAAATTATAACTTCCGCTATTGATAAGCCGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCgg                                                                                      <  1:25287/140‑1 (MQ=255)

                                               ttGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCggg                                                                                     >  2:283570/1‑140 (MQ=255)

                                                  atgaCAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGgtga                                                                                  >  2:58661/1‑140 (MQ=255)

                                                  atgaCAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGgtga                                                                                  >  1:173090/1‑140 (MQ=255)

                                                                  aaCTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGccgccg                                                                  <  1:247415/140‑1 (MQ=255)

                                                                    cTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAgc                                                                       >  2:227244/1‑133 (MQ=255)

                                                                    cTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAgc                                                                       <  1:227244/133‑1 (MQ=255)

                                                                    cTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCgct                                                                >  2:311142/1‑140 (MQ=255)

                                                                                       gAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCt                                             <  1:58661/140‑1 (MQ=255)

                                                                                       gAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCt                                             >  2:186650/1‑140 (MQ=255)

                                                                                        aaGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTg                                            >  2:274/1‑140 (MQ=255)

                                                                                          gCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCCGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCCTGCGGCCTGAc                                          >  2:337256/1‑140 (MQ=255)

                                                                                             ttCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGt                                       >  2:84305/1‑140 (MQ=255)

                                                                                               cATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTgg                                     >  1:280014/1‑140 (MQ=255)

                                                                                                             ccTATGCACAGTGGGGGATTCCCGCAGGCACGGTGCTGATGCTCGACCGGCTGCAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAAc                       <  2:115231/140‑1 (MQ=255)

                                                                                                                 tGCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATTAAAAACCAGa                   >  2:224936/1‑140 (MQ=255)

                                                                                                                  gCACAGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAACCAGAt                  >  1:53126/1‑140 (MQ=255)

                                                                                                                     caGTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAACCAGATGGa               <  1:274/140‑1 (MQ=255)

                                                                                                                       gTGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAACCAGATGGAcc             <  1:84305/140‑1 (MQ=255)

                                                                                                                        tGGGGGATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAACCAGATGGAccc            >  1:174487/1‑140 (MQ=255)

                                                                                                                          ggggATTCCCGCAGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAACCAGATGGACCCgg          >  2:74394/1‑140 (MQ=255)

                                                                                                                                  ccgcagGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAACCAGATGGACCCGGTGTACACg  >  2:82868/1‑140 (MQ=37)

                                                                                                                                  ccgcagGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGAGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAACCAGGTGGACCCGGTTTaccca  >  2:336467/1‑137 (MQ=11)

AGGTGATAAAACGCTACTTCCTGTTTTAGATACTATGTTGTACAAGTTTGATGACAATGAAATTATAACTTCCGCTATTGATAAGCTGAAGCGTTCATAGCGTGAGTTGCCTATGCACAGTGGGGGATTCCCGCCGGCACGGTGCAGATGCTCGACCGGCTGGAAAGTGAAATCCTGGCTGACCGGGTGAGTGAGGAAAGCCGCCGCTGGCTGGCATCGTGCGGCCTGACCGTGGAGCAGATGAAAAACCAGATGGACCCGGTGTACACG  >  NC_000913/3767080‑3767349

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A