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
A13 F1 I2 R1	762	35.5	1545288	95.5%	1475750	117.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,366,935	C→T	326 (TAG→TAA)	pspF ←	psp operon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,366,935	0	C	T	100.0%	95.4 / NA	31	326 (TAG→TAA)	pspF	psp operon transcriptional activator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (19/12); total (19/12)

GATTAATAGCCCAACGCAATAATGTCTGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGCTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAACTGAGTTGCAGCAACTCTTTTTCCTGCTGCATCTG  >  NC_000913/1366810‑1367066

gATTAATAGCCCAACGCAATAATGTCTGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGACGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCt                                                                                                                        <  2:195357/139‑1 (MQ=255)

         cccAACGCAATAATGTCTGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTcaaca                                                                                                               <  2:625410/139‑1 (MQ=255)

            aaCGCAATAATGTCTGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAAcg                                                                                                            >  1:225856/1‑139 (MQ=255)

                cAATAATGTCTGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAAcgcgcg                                                                                                        <  1:368734/139‑1 (MQ=255)

                    aatGTCTGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAAc                                                                                                    <  1:126966/139‑1 (MQ=255)

                    aatGTCTGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAAc                                                                                                    <  1:376407/139‑1 (MQ=255)

                     atGTCTGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACt                                                                                                   <  2:225856/139‑1 (MQ=255)

                          tGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACtgatga                                                                                              >  2:208456/1‑139 (MQ=255)

                                                 tGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAAcgcg                                                                                                          >  1:290362/1‑104 (MQ=255)

                                                 tGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAAcgcg                                                                                                          <  2:290362/104‑1 (MQ=255)

                                                             aTTGATTATGTATGCCGAATCAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTg                                                           >  2:453240/1‑139 (MQ=255)

                                                             aTTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAAcgcgcg                                                                                                        <  2:611373/94‑1 (MQ=255)

                                                             aTTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAAcgcgcg                                                                                                        >  1:611373/1‑94 (MQ=255)

                                                             aTTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTg                                                           >  2:766139/1‑139 (MQ=255)

                                                                      gtatgCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATAttt                                                  >  2:771981/1‑139 (MQ=255)

                                                                        atgCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTcc                                                >  1:150157/1‑139 (MQ=255)

                                                                         tgCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCATTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTccc                                               >  2:329097/1‑139 (MQ=255)

                                                                           ccGTATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTATGGTTATATTTCCCtt                                             >  1:524147/1‑139 (MQ=255)

                                                                           ccGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCtt                                             >  1:694728/1‑139 (MQ=255)

                                                                               aTAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCttgttg                                         >  2:137715/1‑139 (MQ=255)

                                                                                        tCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAAc                                    <  1:5439/135‑1 (MQ=255)

                                                                                        tCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAAc                                    >  2:5439/1‑135 (MQ=255)

                                                                                          aCGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAACTGAGtt                              >  1:752291/1‑139 (MQ=255)

                                                                                              cgcATCCGGCAAGTTGTATTGCTCAACTTCATTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAACTGAGTTgcag                          <  1:329097/139‑1 (MQ=255)

                                                                                               gcATCCGGCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAACTGAGTTgcagc                         >  2:382038/1‑139 (MQ=255)

                                                                                                      gCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCaaa                                     <  1:651134/120‑1 (MQ=255)

                                                                                                      gCAAGTTGTATTGCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCaaa                                     >  2:651134/1‑120 (MQ=255)

                                                                                                                  gCTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAACTGAGTTGCAGCAACTCTTTTTCCTGCTGCa      >  1:720393/1‑139 (MQ=255)

                                                                                                                   cTCAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAACTGAGTTGCAGCAACTCTTTTTCCTGCTGCAt     >  2:154988/1‑139 (MQ=255)

                                                                                                                     cAACTTCGTTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTGATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAACTGAGTTGCAGCAACTCTTTTTCCTGCTGCATCt   >  1:407590/1‑139 (MQ=255)

                                                                                                                      aaCTTCGTTAAATCTGGTGCTGTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAACTGAGTTGCAGCAACTCTTTTTCCTGCTGCATCTg  <  1:453240/139‑1 (MQ=255)

GATTAATAGCCCAACGCAATAATGTCTGATGCGCTGCGCTTATCAGGCCTGCAAACGACGTATTGATTATGTATGCCGAATAAAGCATTCACGCCGCATCCGGCAAGTTGTATTGCTCAACTTCGCTAAATCTGGTGCTTTTTCAACAACGCGCGGAACTGATGATAAGTTAACCCCAGTAATTCAGCCGCGCGCTTCTGGTTATATTTCCCTTGTTGCAAACTGAGTTGCAGCAACTCTTTTTCCTGCTGCATCTG  >  NC_000913/1366810‑1367066

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A