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
A0 F0 I1 R1	42	117.4	2145065	96.9%	2078567	261.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	4,296,189	A→G	20.1%	intergenic (+396/+248)	gltP → / ← yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,296,189	0	A	G	20.1%	38.4 / 4.9	29	intergenic (+396/+248)	gltP/yjcO	glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein
Reads supporting (aligned to +/- strand): ref base A (15/8); new base G (4/2); total (19/10)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01

TAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATG‑CCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTC  >  NC_000913/4295917‑4296457

tacggCGTTTATTCCGGGCCCGAAGACACCGCGTAATGCGACGCTTAACGGTTCTTATCAGGCCTACGCCAGACAGCGGAATGGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTaa                                                                                                                                                                                                                                                                              <  1:1014219/271‑1 (MQ=11)

              cgcaacggcgcgtacggccgttggcggcgCTTAACGGTTTGTATCAGGCCTAGGCCAGACAGCGCAATAGCCTGATTTAGTGTGATTTTGTGGGGCGTGTAAGGCGTTTACGCCGCGTCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGc                                                                                                                                                                                                                                                               <  2:154488/252‑1 (MQ=11)

               gCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATACTGCGTTTTTGCCGCATCCGACCTCACCGCCTGATGCGACGCTTAACGCGCTTTATCCGGc                                                                                                                                                                                                                                                               >  2:1064468/1‑274 (MQ=255)

                cagccGTCATCAACGCCTGATGCCACGCTTACCGCGTCTTATCAGTCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCAGCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGc                                                                                                                                                                                                                                                               <  1:628048/270‑1 (MQ=16)

                      acggcAAAGCCTGATGCGACGTGTAACGTGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCa                                                                                                                                                                                                                                                       <  1:716802/271‑1 (MQ=255)

                           aagcccctaTGCGGCGGTTACCGGGTTTTAGGGGGCATAGGCCAGACACCGCAATAGCAGTATTTAGGTTGATTTTGTAGGTCGGATAAGGCGTTTCCGCCGGATCCGACATAAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACa                                                                                                                                                                                                                                                   <  2:878334/266‑1 (MQ=11)

                             cGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTCGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTACCGCCTCTTATCAGGCCTTCGCCAGACGgcg                                                                                                                                                                                                                                                >  1:238381/1‑275 (MQ=255)

                                     gCGACGCTTACCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTGGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGc                                                                                                                                                                                                                                         <  1:1050270/274‑1 (MQ=18)

                                                    tCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATATCCTGATTTAGCGTGATTTTGTAGGTCGGATACGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACCCTTAACTCGTCTTATCAGGCCTCTCCCACCCCGCGAAATAGCCTGATTTACCCTGact                                                                                                                                                                                                                         >  2:792481/1‑273 (MQ=11)

                                                     cTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGCCAGCGCAATAGCCTGCTTTAGCGTTATTTTGGAGGTCGGATACGGCGTTTATGCCGCATCAGACATAAACGCCGGATGCGACGATTGACGCGTCTTATCAGGCCTGCGCCAGCCGGCGCATAAGACTGAATTAGCGCGAttt                                                                                                                                                                                                                        >  2:55822/1‑275 (MQ=11)

                                                          cAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAg                                                                                                                                                                                                                   >  1:821159/1‑275 (MQ=33)

                                                             gCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGAAATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGt                                                                                                                                                                                                                 >  1:211187/1‑274 (MQ=18)

                                                                  cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCACTAGCCTGATTTAGCGTGATTTCGTAGGTCGGATAACGCGTTTATGCCGCATCCCAAATAAACGCCTGCTGCGACGCTTACCGCGTCTGTACAGGCCTCTCCCCAACTGCGCAATAGCCTGATTTacccttatacttaagttccgat                                                                                                                                                                                                            >  2:388474/1‑253 (MQ=11)

                                                                  cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTACCGCCTCTTATCAGGCCTACGCCAGACCGAGGAACAGCCTTATTTCGCGTTATTCTGTAGCTCGGAt                                                                                                                                                                                                            >  2:759885/1‑274 (MQ=11)

                                                                  cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACTCCAGACAGCGCATTAGCCTTATTTAGCGTGATTTTGTAGGCCGGAt                                                                                                                                                                                                            >  1:629666/1‑274 (MQ=18)

                                                                  cGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGTCAGACAGCGCCAAATCCTGCTTTAGCGTGATTTTGTAGGTCGGaca                                                                                                                                                                                                           >  2:733463/1‑273 (MQ=16)

                                                                       gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACCTCCACGCCTGCTGCGACGCTTACCGCGTCTTCTCAGGCCTACCCCAGCAAGCGCACTAGCCTGCTTTAGCGTGATTTTGTAGGCCGGATAAGGc                                                                                                                                                                                                       >  2:778543/1‑274 (MQ=11)

                                                                            cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGCATTAGCGTGATTTTGTCGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTACCGGGTCTTATCCGGCTTACGCCACACAGCGCAATAGCCTGCTTTAGCGTGATTTTGTAGGCCGGATCAGGCGTTTac                                                                                                                                                                                                 >  2:133479/1‑274 (MQ=11)

                                                                            cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAgc                                                                                                                                                                                                                                                 >  1:418734/1‑227 (MQ=34)

                                                                            cgcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACCACTGATGCGTCGCTTAACGCGTCTTATCAGCCCTACGCCACAAACGGGAATAGCCTTATTTAGCGTGATTTTGGAGTTCGGATACGGGCTTTa                                                                                                                                                                                                  >  2:1058365/1‑274 (MQ=11)

                                                                             gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCAGCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGTGCTACGCCAGACAGCGAAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTacg                                                                                                                                                                                                <  1:146558/275‑3 (MQ=12)

                                                                                aTAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCaa                                                                                                                                                                                                                                             <  2:418734/227‑1 (MQ=34)

                                                                                                                          tACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGACTGATTTCGCGTGATTTTGTAGGTCGGATCAGGCGTTTATGCCGCATCCGCCATCAACCCCTGATGCAACGATTAACGCGTCTTATCATGCCTTCGCCAGACCCCCCAATAGCCGTACGTAGCGCGATGTTGTAGAGCGGCTCGTGCGTTTACGCCGCATCCGACCACAACCACAGATGCCACACTTGActgtgctca                                                                                                                                                    >  2:844104/1‑266 (MQ=11)

                                                                                                                                                                                                                                      ggctttacgCCGCATCCGTCATCCACGCCTGCTGCGACGCTTGCCGCGTCTTAGCAGGCCGACGCCAGACAGCGCAATAGCCTGATTGAGCGTGATTTTGTAGGCCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCaatgcctgatgcgacgcttgccgcgt                                       >  2:798814‑M2/4‑249 (MQ=255)

                                                                                                                                                                                                                                      gCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCATGATGCGACGCTTGCCGCGTCTTATCCGGCCTACGCTAGACAGCGCAATAGCCTGCTTTGGCGTGATTTTCTCGTTCGGATAGGCAGTTCATGCCGCCT‑CGGCACTAATGACCTGATGCgctccttaactcc                                       >  2:1024572/1‑262 (MQ=11)

                                                                                                                                                                                                                                            acgccGCATCCGACATCACCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCaatgcctgatgcgacgcttgccgcgtcttat                                  >  1:800610‑M2/3‑243 (MQ=255)

                                                                                                                                                                                                                                                  cATCCGACACAAACGCCGGAGGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCAGAATCCGACATAAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCACTTTTTTGATTTCGTCTGATTTTGTAGGTCGGATCAGGCGTTTACGCCGCATCCTCCCTTTCTC‑CCTTTTGCGATTCTTGCCGCGTCTTATCAGGCCt                          <  1:279069/275‑1 (MQ=11)

                                                                                                                                                                                                                                                            aaagtccTGATGCGAGGCTTGCCGCGGCTTATCAGGCTTACGCCAGCAAGCGAAAGATCCTGATTTGGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGAACCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATG‑CCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCg                <  2:143056/270‑1 (MQ=11)

                                                                                                                                                                                                                                                               cGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATG‑CCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGtt              >  1:573335/1‑274 (MQ=18)

                                                                                                                                                                                                                                                                           cGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCTTTATTTAGCGTGATTTTTTAGGTCGCATAAGGCGTTTCCGCCGCATCCGACATCaacgcctgatgctacgcttgccgtgtcttctcaggccttcccccgccgtctaaataacctgat  <  2:146447‑M2/275‑64 (MQ=255)

TAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATG‑CCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTC  >  NC_000913/4295917‑4296457

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 9 ≤` `ATCG/ATCG` `< 25 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A