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
A5 F1 I2 R1	77	34.8	1608548	95.0%	1528120	114.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,834,077	G→A	A56T (GCC→ACC)	norW →	NADH:flavorubredoxin oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,834,077	0	G	A	90.3%	83.5 / 2.2	31	A56T (GCC→ACC)	norW	NADH:flavorubredoxin oxidoreductase
Reads supporting (aligned to +/- strand): ref base G (1/2); new base A (16/12); total (17/14)
Fisher's exact test for biased strand distribution p-value = 5.76e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.40e-01

GCTTCGCCGCCCGCCAACTGGTGAAAAATATTCGCAAACAGGACGCCACTATTCCATTAACCCTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTGCCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCGATGCCGAAGCCCGTGTGGTGAAAAGCCAGAATAATCAGTGGCAATACG  >  NC_000913/2833943‑2834212

gCTTCGCCGCCCGCCAACTGGTGAAAAATATTCGCAAACAGGACGCCACTATTCCATTAACCCTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGa                                                                                                                                     <  1:510652/139‑1 (MQ=255)

gCTTCGCCGCCCGCCAACTGGTGAAAAATATTCGCAAACAGGACGCCACTATTCCATTAACCCTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGa                                                                                                                                     <  1:785108/139‑1 (MQ=255)

                              ttCGCAAACAGGACGCCACTATTCCATTAACCCTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAAtt                                                                                                       >  2:34464/1‑139 (MQ=255)

                                     aCAGGACGCCACTATTCCATTAACCCTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAg                                                                                                <  1:387534/139‑1 (MQ=255)

                                               aCTATTCCATTAACCCTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATc                                                                                      >  2:417701/1‑139 (MQ=255)

                                                cTATTCCATTAACCCTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCt                                                                                     <  1:417701/139‑1 (MQ=255)

                                                             ccTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAAt                                                                                       <  1:28550/124‑1 (MQ=255)

                                                             ccTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAAt                                                                                       >  2:28550/1‑124 (MQ=255)

                                                               tGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCcaca                                                                      <  1:531502/139‑1 (MQ=255)

                                                                gATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTGCCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTg                                                                              >  2:596518/1‑130 (MQ=255)

                                                                gATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTGCCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTg                                                                              <  1:596518/130‑1 (MQ=255)

                                                                  ttGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTGCCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAAc                                                                   <  1:458494/139‑1 (MQ=255)

                                                                               cATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGat                                                      >  2:101153/1‑139 (MQ=255)

                                                                                 tGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGatat                                                    >  2:798552/1‑139 (MQ=255)

                                                                                       aGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCGATGc                                              >  1:64431/1‑139 (MQ=255)

                                                                                               aaaCCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCGATGCCGAAGccc                                      <  1:34464/139‑1 (MQ=255)

                                                                                                      aCCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCcaca                                                                      <  1:10841/100‑1 (MQ=255)

                                                                                                      aCCTCAGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCcaca                                                                      >  2:10841/1‑100 (MQ=255)

                                                                                                           aGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCg                                                  <  2:228059/115‑1 (MQ=255)

                                                                                                           aGCCATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCg                                                  >  1:228059/1‑115 (MQ=255)

                                                                                                             ccATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTg                                                            <  1:529378/103‑1 (MQ=255)

                                                                                                             ccATGTTATCAGTCAGGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTg                                                            >  2:529378/1‑103 (MQ=255)

                                                                                                                           agGGGCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCGATGCCGAAGCCCGTGTGGTGAAAAGCCAGAATAATCAGTg          >  1:334794/1‑139 (MQ=255)

                                                                                                                            ggggCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGa                                                                                                 <  1:736306/51‑1 (MQ=255)

                                                                                                                            ggggCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGa                                                                                                 >  2:736306/1‑51 (MQ=255)

                                                                                                                            ggggCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGtt                                                                                           <  1:557822/57‑1 (MQ=255)

                                                                                                                            ggggCAACGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGtt                                                                                           >  2:557822/1‑57 (MQ=255)

                                                                                                                                   cGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCGATGCCGAAGCCCGTGTGGTGAAAAGCCAGAATAATCAGTGGCAATACg  >  2:206886/1‑139 (MQ=255)

                                                                                                                                   cGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCGATGCCGAAGCCCGTGTGGTGAAAAGCCAGAATAATCAGTGGCAATACg  >  2:265677/1‑139 (MQ=255)

                                                                                                                                   cGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCGATGCCGAAGCCCGTGTGGTGAAAAGCCAGAATAATCAGTGGCAATACg  >  1:447551/1‑139 (MQ=255)

                                                                                                                                   cGTACCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCGATGCCGAAGCCCGTGTGGTGAAAAGCCAGAATAATCAGTGGCAATACg  >  1:118382/1‑139 (MQ=255)

GCTTCGCCGCCCGCCAACTGGTGAAAAATATTCGCAAACAGGACGCCACTATTCCATTAACCCTGATTGCCGCCGACAGCATGGATGAGTACAACAAACCTGACCTCAGCCATGTTATCAGTCAGGGGCAACGTGCCGATGACCTTACCCGCCAGACGGCGGGTGAATTTGCCGAGCAGTTTAATCTGCACCTGTTTCCACAAACCTGGGTGACGGATATCGATGCCGAAGCCCGTGTGGTGAAAAGCCAGAATAATCAGTGGCAATACG  >  NC_000913/2833943‑2834212

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `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