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
A11 F1 I2 R1	59	52.6	2411032	94.1%	2268781	113.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,459,820	A→G	pseudogene (331/366 nt)	cybC →	pseudogene, truncated cytochrome b562, cytochrome b(562)

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,459,820	0	A	G	100.0%	180.4 / NA	47	pseudogene (331/366 nt)	cybC	pseudogene, truncated cytochrome b562, cytochrome b(562)
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (21/26); total (21/26)

TCACCGGACAGCCCGGAAATGAAAGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAACGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGCAAATGATGCACCACCTGATTGCTGCTGCCGCGCCAGATCAGGGAAGGGT  >  NC_000913/4459688‑4459955

tCACCGGACAGCCCGGAAATGAAAGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGAccc                                                                                                                                   <  1:805879/139‑1 (MQ=255)

    cGGACAGCCCGGAAATGAAAGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCaa                                                                                                                               >  2:571030/1‑139 (MQ=255)

          gCCCGGAAATGAAAGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCata                                                                                                                         <  1:182973/139‑1 (MQ=255)

           cccGGAAATGAAAGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCatat                                                                                                                        <  2:506089/139‑1 (MQ=255)

           cccGGAAATGAAAGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCatat                                                                                                                        >  1:625839/1‑139 (MQ=255)

           cccGGAAATGAAAGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCat                                                                                                                          <  1:650003/137‑1 (MQ=255)

           cccGGAAATGAAAGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCat                                                                                                                          >  2:650003/1‑137 (MQ=255)

                     aaaGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGt                                                                                                              >  2:214189/1‑139 (MQ=255)

                     aaaGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGt                                                                                                              >  1:265002/1‑139 (MQ=255)

                                      tttCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCAtt                                                                                             <  1:1067944/139‑1 (MQ=255)

                                      tttCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCAtt                                                                                             <  1:1121125/139‑1 (MQ=255)

                                           aCATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCt                                                                                        <  1:379916/139‑1 (MQ=255)

                                                        tcAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTc                                                                           <  2:265002/139‑1 (MQ=255)

                                                        tcAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTc                                                                           >  1:916950/1‑139 (MQ=255)

                                                        tcAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTc                                                                           <  2:214049/139‑1 (MQ=255)

                                                           gATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGTGCAACTGAAAGCGACCCGCAATTCCTATCACAAGAAGTATCGTTAATTCCTTATTTCCCTGTTGCCTGTACTCAgg                                                                        <  1:739276/139‑1 (MQ=255)

                                                           gATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATcac                                                                                                                     >  1:297726/1‑94 (MQ=255)

                                                           gATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATcac                                                                                                                     <  2:297726/94‑1 (MQ=255)

                                                            aTTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGt                                                                       <  2:625839/139‑1 (MQ=255)

                                                                acgacgCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACa                                                                   <  2:919460/139‑1 (MQ=255)

                                                                  gacgCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCg                                                                                                                                  <  1:1043760/74‑1 (MQ=255)

                                                                  gacgCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCg                                                                                                                                  >  2:1043760/1‑74 (MQ=255)

                                                                  gacgCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAgg                                                                 <  2:79498/139‑1 (MQ=255)

                                                                             gCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTatcat                                                      <  1:214189/139‑1 (MQ=255)

                                                                                ggCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTc                                                                           >  2:9275/1‑115 (MQ=255)

                                                                                ggCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTc                                                                           <  1:9275/115‑1 (MQ=255)

                                                                                ggCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTaa                                                                     <  1:601845/121‑1 (MQ=255)

                                                                                ggCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTaa                                                                     >  2:601845/1‑121 (MQ=255)

                                                                                 gCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGCa                                                  >  2:267837/1‑139 (MQ=255)

                                                                                     aTGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCatat                                                                                                                        <  1:299938/65‑1 (MQ=255)

                                                                                     aTGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCatat                                                                                                                        >  2:299938/1‑65 (MQ=255)

                                                                                               agtaaaAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGc                                                   <  2:1113640/124‑1 (MQ=255)

                                                                                               agtaaaAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGc                                                   >  1:1113640/1‑124 (MQ=255)

                                                                                                     agaagCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTaa                                                                                                      <  1:62237/67‑1 (MQ=255)

                                                                                                     agaagCGCAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTaa                                                                                                      >  2:62237/1‑67 (MQ=255)

                                                                                                         gcgcAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGCAAATGATGCACCACCTGATtgctgc                          >  2:205289/1‑139 (MQ=255)

                                                                                                         gcgcAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGCAAATGATGCACCACCTGATtgctgc                          >  2:772364/1‑139 (MQ=255)

                                                                                                          cgcAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTc                                                                           <  1:837866/89‑1 (MQ=255)

                                                                                                          cgcAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTc                                                                           >  2:837866/1‑89 (MQ=255)

                                                                                                           gcAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCat                                                                                                                          <  2:39309/41‑1 (MQ=255)

                                                                                                           gcAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCat                                                                                                                          >  1:39309/1‑41 (MQ=255)

                                                                                                           gcAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTatca                                                       <  1:778474/108‑1 (MQ=255)

                                                                                                           gcAGGCTGCTGCAGAGCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTCTTGCCTGCACTCAGGTACCAGGGAACTTatca                                                       >  2:778474/1‑108 (MQ=255)

                                                                                                                         agCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCAtt                                                                                             <  1:1204004/56‑1 (MQ=255)

                                                                                                                         agCAACTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCAtt                                                                                             >  2:1204004/1‑56 (MQ=255)

                                                                                                                             aCTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGc                                                                               <  1:634425/66‑1 (MQ=255)

                                                                                                                             aCTGAAAGCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGc                                                                               >  2:634425/1‑66 (MQ=255)

                                                                                                                                 aaagCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGCAATTGATGCACCACCTGATTGCTGCTGCCGCGCCAGATCAGGGAAGGGt  <  2:1098111/139‑1 (MQ=255)

                                                                                                                                 aaagCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGCAAATGATGCACCACCTGATTGCTGCTGCCGCGCCAGATCAGGGAAGGGt  <  2:631185/139‑1 (MQ=255)

                                                                                                                                 aaagCGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGCAAATGATGCACCACCTGATTGCTGCTGCCGCGCCAGATCAGGGAAGGGt  <  1:924803/139‑1 (MQ=255)

TCACCGGACAGCCCGGAAATGAAAGATTTCCGCCACGGTTTCGACATTCTGGTCGGTCAGATTGACGACGCGCTGAAGCTGGCAAATGAAGGTAAAGTAAAAGAAGCGCAGGCTGCTGCAGAGCAACTGAAAACGACCCGCAATTCATATCACAAGAAGTATCGTTAATTCCTCATTTCCCTGTTGCCTGCACTCAGGTAACAGGGAACTTATCATCGCAAATGATGCACCACCTGATTGCTGCTGCCGCGCCAGATCAGGGAAGGGT  >  NC_000913/4459688‑4459955

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A