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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,183,426	G→A	Q76* (CAG→TAG)	yegX ←	putative family 25 glycosyl hydrolase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,183,426	0	G	A	96.9%	117.8 / ‑5.9	32	Q76* (CAG→TAG)	yegX	putative family 25 glycosyl hydrolase
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (13/18); minor base C (0/1); total (13/19)
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

AGGCCATTTTCGCGGCTTAGTTGCCAGTTACGCGAAAAATAGGGGTCCACCAGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTGCCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAATAGAAAAAATTCACCGTCTGACGCGG  >  NC_000913/2183281‑2183570

agGCCATTTTCGCGGCTTAGTTGCCAGTTACGCGAAAAATAGGGGTCCACCAGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAgc                                                                                                                                             <  1:185278/151‑1 (MQ=255)

 ggCCATTTTCGCGGCTTAGTTGCCAGTTACGCGAAAAATAGGGGTCCACCAGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCTCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTCCCAgc                                                                                                                                             <  2:177688/150‑1 (MQ=255)

    cATTTTCGCGGCTTAGTTGCCAGTTACGCGAAAAATAGGGGTCCACCAGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGa                                                                                                                                         <  2:30904/151‑1 (MQ=255)

                               gcgAAAAATAGGGGTCCACCAGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACt                                                                                                              <  2:234551/151‑1 (MQ=255)

                                   aaaaTAGGGGTCCACCAGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCa                                                                                                          <  2:259184/151‑1 (MQ=255)

                                             tCCACCAGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGa                                                                                                 >  1:653783/1‑150 (MQ=255)

                                              ccaccaGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGaa                                                                                                <  2:1902/150‑1 (MQ=255)

                                                accaGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAg                                                                                             <  2:332545/151‑1 (MQ=255)

                                                  caGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCg                                                                                           >  1:238896/1‑151 (MQ=255)

                                                         tCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGAt                                                                                     <  1:453504/150‑1 (MQ=255)

                                                              ttCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAAcc                                                                               >  2:156876/1‑151 (MQ=255)

                                                                  gTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGc                                                                           >  1:667097/1‑151 (MQ=255)

                                                                       cTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATa                                                                       >  2:244909/1‑150 (MQ=255)

                                                                        ttAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATaa                                                                      >  1:118441/1‑150 (MQ=255)

                                                                                 gCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGt                                                            <  1:567852/151‑1 (MQ=255)

                                                                                                    cATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTg                                         >  2:562361/1‑151 (MQ=255)

                                                                                                    cATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTg                                         >  2:538715/1‑151 (MQ=255)

                                                                                                     aTTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTg                                         >  2:174102/1‑150 (MQ=255)

                                                                                                       tGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGaa                                       <  1:428653/150‑1 (MQ=255)

                                                                                                       tGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAAc                                      >  1:658815/1‑151 (MQ=255)

                                                                                                            cgcATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAActgctg                                 <  1:444754/151‑1 (MQ=255)

                                                                                                              cATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTc                               <  2:326776/151‑1 (MQ=255)

                                                                                                               aTTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCg                              <  2:353729/151‑1 (MQ=255)

                                                                                                                 ttttGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGa                             <  2:55756/150‑1 (MQ=255)

                                                                                                                    tGCCACCCGCTGCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAAt                           >  2:597037/1‑149 (MQ=255)

                                                                                                                               gCCAGTCGATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAATAGAAAAAATTCAc              <  2:10393/151‑1 (MQ=255)

                                                                                                                                      gATCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAATAGAAAAAATTCACCGTCTg        >  2:172002/1‑150 (MQ=255)

                                                                                                                                       aTCCGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAATAGAAAAAATTCACCGTCTGAc      <  2:365979/151‑1 (MQ=255)

                                                                                                                                         ccGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAATAGAAAAAATTCACCGTCTGAct     <  1:224334/150‑2 (MQ=255)

                                                                                                                                         ccGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAATAGAAAAAATTCACCGTCTGAcg     <  1:631003/150‑1 (MQ=255)

                                                                                                                                          cGCTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAATAGAAAAAATTCACCGTCTGAcgcg   <  2:31043/151‑1 (MQ=255)

                                                                                                                                            cTCCTACCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAATAGAAAAAATTCACCGTCTGACGCgg  >  2:574604/1‑150 (MQ=255)

AGGCCATTTTCGCGGCTTAGTTGCCAGTTACGCGAAAAATAGGGGTCCACCAGCTTTTCGCCTTCCGTCGCCTTAATAAAAGCAAACTGTAAGCGGATACCATTGTCGCGCATTTTTGCCACCCGCTGCCAGTCGATCCGCTCCTGCCAGCGCGAAACATCTATTCCGTGAATGGTGTAACTGGCAGGAATGCGAATAGCGAAAGATTTAACCGGGCGATAACCGTAGAAGTGGATGTAGTCTGTAATCTGAACTGCTGTCGAATAGAAAAAATTCACCGTCTGACGCGG  >  NC_000913/2183281‑2183570

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A