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
A4 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,803,567	G→A	pseudogene (50/1476 nt)	arpB →	pseudogene, ankyrin repeats

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,803,567	0	G	A	100.0%	161.6 / NA	51	pseudogene (50/1476 nt)	arpB	pseudogene, ankyrin repeats
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (30/21); total (30/21)

ACCATTTGCGAAGCATACTGGATTATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAGTGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTAAACATTACTCCTCCGTTGAATCCATAC  >  NC_000913/1803434‑1803701

aCCATTTGCGAAGCATACTGGATTCTATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATAAACCCAACAGTAAATCTCAATGGTAATGCAt                                                                                                                                   >  2:630135/1‑139 (MQ=255)

aCCATTTGCGAAGCATACTGGATTATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCAt                                                                                                                                   >  2:41555/1‑139 (MQ=255)

aCCATTTGCGAAGCATACTGGATTATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCAt                                                                                                                                   <  1:908810/139‑1 (MQ=255)

aCCATTTGCGAAGCATACTGGATTATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCAt                                                                                                                                   >  1:609193/1‑139 (MQ=255)

aCCATTTGCGAAGCATACTGGATTATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCAt                                                                                                                                   >  2:861340/1‑139 (MQ=255)

aCCATTTGCGAAGCATACTGGATTATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCAt                                                                                                                                   >  2:908810/1‑139 (MQ=255)

 ccATTTGCGAAGCATACTGGATTATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACA‑CCAACAGTAAATCTCAATGGTAATGCATGt                                                                                                                                 >  1:882424/1‑139 (MQ=255)

                aCTGGATTATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTcc                                                                                                                   >  1:279656/1‑139 (MQ=255)

                      ttATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGa                                                                                                             <  1:870418/139‑1 (MQ=255)

                       tataTTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGAc                                                                                                            <  2:524815/139‑1 (MQ=255)

                        atatTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACGGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACg                                                                                                           <  2:778799/139‑1 (MQ=255)

                         tatTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGc                                                                                                          >  1:451744/1‑139 (MQ=255)

                         tatTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATACAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCAGACGc                                                                                                          >  1:577935/1‑139 (MQ=255)

                          atTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCt                                                                                                         >  2:851723/1‑139 (MQ=255)

                              aacaggaacagTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTAttt                                                                                                     >  2:255296/1‑139 (MQ=255)

                                        gTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCa                                                                                           >  1:78700/1‑139 (MQ=255)

                                        gTTAACTGCTGAAGATCGAAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCa                                                                                           >  2:799035/1‑139 (MQ=255)

                                             ctgctgAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGt                                                                                      <  1:367454/139‑1 (MQ=255)

                                                 tgAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTc                                                                                                                >  2:31904/1‑109 (MQ=255)

                                                 tgAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTc                                                                                                                <  1:31904/109‑1 (MQ=255)

                                                       tCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATa                                                                            <  1:865503/139‑1 (MQ=255)

                                                          tAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGc                                                                         >  1:509983/1‑139 (MQ=255)

                                                                 tGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCGCTTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGAt                                                                  >  1:155951/1‑139 (MQ=255)

                                                                  gTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGAtt                                                                 >  2:478518/1‑139 (MQ=255)

                                                                           tGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGaa                                                        >  1:73293/1‑139 (MQ=255)

                                                                             tCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTTGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAAt                                                      >  2:37510/1‑139 (MQ=255)

                                                                             tCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAAt                                                      >  1:273435/1‑139 (MQ=255)

                                                                                     aaTCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAgg                                              <  2:577935/139‑1 (MQ=255)

                                                                                       tCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCa                                            <  2:273435/139‑1 (MQ=255)

                                                                                                  aaaaaCTATACA‑CCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGa                                <  2:882424/139‑1 (MQ=255)

                                                                                                   aaaaCTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGa                                <  2:73293/139‑1 (MQ=255)

                                                                                                     aaCTATACACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGAtt                              <  1:478518/139‑1 (MQ=255)

                                                                                                      aCTATACCCCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTa                             <  2:420779/139‑1 (MQ=255)

                                                                                                        tataCACCCAACAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTaaa                           >  1:649139/1‑139 (MQ=255)

                                                                                                                  aCAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATAc                                                                           <  1:69926/81‑1 (MQ=255)

                                                                                                                  aCAGTAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATAc                                                                           >  2:69926/1‑81 (MQ=255)

                                                                                                                      tAAATCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTAAACATTACTCCTCCGt             <  2:509983/139‑1 (MQ=255)

                                                                                                                         aTCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCAt                                                                                          <  1:850397/59‑1 (MQ=255)

                                                                                                                         aTCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCAt                                                                                          >  2:850397/1‑59 (MQ=255)

                                                                                                                         aTCTCAATGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTAAACATTACTCCTCCGTTGa          >  2:368072/1‑139 (MQ=255)

                                                                                                                              aaTGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATa                                                                            >  1:882289/1‑68 (MQ=255)

                                                                                                                              aaTGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATa                                                                            <  2:882289/68‑1 (MQ=255)

                                                                                                                              aaTGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGa                                <  1:851322/112‑1 (MQ=255)

                                                                                                                              aaTGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGa                                >  2:851322/1‑112 (MQ=255)

                                                                                                                              aaTGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTAAACATTACTCCTCCGTTGAATCCa     >  2:587162/1‑139 (MQ=255)

                                                                                                                              aaTGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTAAACATTACTCCTCCGTTGAATCCa     >  1:818792/1‑139 (MQ=255)

                                                                                                                              aaTGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTAAACATTACTCCTCCGTTGAATCCa     >  1:917603/1‑139 (MQ=255)

                                                                                                                              aaTGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTAAACATTACTCCTCCGTTGAATCCa     <  2:917603/139‑1 (MQ=255)

                                                                                                                                tGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATc                                                                                         >  2:465215/1‑53 (MQ=255)

                                                                                                                                tGGTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATc                                                                                         <  1:465215/53‑1 (MQ=255)

                                                                                                                                 ggTAATGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTTATTCATTGAGAAATGGAAAATGCAAAGTCAATCTGATTAAACATTACTCCTCCGTTGAATCCATAc  <  2:451744/139‑1 (MQ=255)

ACCATTTGCGAAGCATACTGGATTATATTGAACAGGAACAGTTAACTGCTGAAGATCGTAACCATTGTATGAAACTGTCTAAAAAAATCCATAGAGAAAAAAACTATACACCCAACAGTAAATCTCAATGGTAGTGCATGTTTTTTGCAATCTCCTTCTGACGCTATTTTTTGTCGCCATCTGTCATTGCAATACGCCCTTGATTCATTGAGAAATGGAAAAGGCAAAGTCAACCTGATTAAACATTACTCCTCCGTTGAATCCATAC  >  NC_000913/1803434‑1803701

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A