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	2,291,973	T→C	G146G (GGA→GGG)	ccmH ←	heme lyase, CcmH subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,291,973	0	T	C	100.0%	133.7 / NA	38	G146G (GGA→GGG)	ccmH	heme lyase, CcmH subunit
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (16/22); total (16/22)

TGTCCAGCAACGCCGGAGCCTGTGCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATATCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGCGTATATGACCCAACCGCCAATGCCAATAGCCACTACTGGCAGCACC  >  NC_000913/2291843‑2292096

tGTCCAGCAACGCCGGAGCCTGTGCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACg                                                                                                                     >  2:530039/1‑139 (MQ=255)

            ccGGAGCCTGTGCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCgg                                                                                                         >  1:660481/1‑139 (MQ=255)

            ccGGAGCCTGTGCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCAgg                                                                                                         >  2:141691/1‑139 (MQ=255)

                  ccTGTGCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCt                                                                                                   <  1:634605/139‑1 (MQ=255)

                  ccTGTGCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCt                                                                                                   <  1:62371/139‑1 (MQ=255)

                   cTGTGCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCtt                                                                                                  <  2:873924/139‑1 (MQ=255)

                    tgtgCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGc                                                                                                                    >  2:80824/1‑120 (MQ=255)

                    tgtgCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGc                                                                                                                    <  1:80824/120‑1 (MQ=255)

                              ccTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGaaa                                                                                       >  2:925437/1‑139 (MQ=255)

                               ctgctgCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAAc                                                                                      <  1:129064/139‑1 (MQ=255)

                                tgctgcCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCa                                                                                                                       >  2:741582/1‑105 (MQ=255)

                                tgctgcCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCa                                                                                                                       <  1:741582/105‑1 (MQ=255)

                                                   gctgATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTAc                                                                  <  1:925437/139‑1 (MQ=255)

                                                               cAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGa                                                      <  2:660481/139‑1 (MQ=255)

                                                               cAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGa                                                      <  2:660551/139‑1 (MQ=255)

                                                                aGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAg                                                     <  1:257143/139‑1 (MQ=255)

                                                                aGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAg                                                     <  2:801831/139‑1 (MQ=255)

                                                                aGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAg                                                     <  1:790174/139‑1 (MQ=255)

                                                                  tCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAAc                                                                                      <  2:212175/104‑1 (MQ=255)

                                                                  tCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAAc                                                                                      >  1:212175/1‑104 (MQ=255)

                                                                      gtagtaGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGCg                                               >  1:538955/1‑139 (MQ=255)

                                                                                aCGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGGGTATATGAccc                                     >  1:608335/1‑139 (MQ=255)

                                                                                 cGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCt                                                                                                   <  2:499670/76‑1 (MQ=255)

                                                                                 cGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCt                                                                                                   >  1:499670/1‑76 (MQ=255)

                                                                                    cagccaCAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTc                                                                                 >  1:721783/1‑91 (MQ=255)

                                                                                    cagccaCAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTc                                                                                 <  2:721783/91‑1 (MQ=255)

                                                                                       ccaCAATTAACGCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGCGTATATGACCCAACCgcc                              <  2:216310/139‑1 (MQ=255)

                                                                                                  gCCACCACAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGCGTATATGACCCAACCGCCAATGCCAATAg                   <  1:530039/139‑1 (MQ=255)

                                                                                                     accacAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAg                                                     <  2:256562/102‑1 (MQ=255)

                                                                                                     accacAATACCCGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAg                                                     >  1:256562/1‑102 (MQ=255)

                                                                                                              cccGGCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGCGTATATGACCCAACCGCCAATGCCAATAGCCACTACTGgca       <  2:608335/139‑1 (MQ=255)

                                                                                                                 ggCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAg                                                     >  2:92572/1‑90 (MQ=255)

                                                                                                                 ggCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAg                                                     <  1:92572/90‑1 (MQ=255)

                                                                                                                 ggCAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGCGTATATGACCCAACCGCCAATGCCAATAGCCACTACTGgcagca    >  1:398192/1‑139 (MQ=255)

                                                                                                                   cAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGCGTATATGACCCAACCGCCAATGCCAATAGCCACTACTGGCAGCAcc  <  2:122394/139‑1 (MQ=255)

                                                                                                                   cAGATAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGCGTATATGACCCAACCGCCAATGCCAATAGCCACTACTGGCAGCAcc  >  1:557032/1‑139 (MQ=255)

                                                                                                                      aTAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAAc                                                                                      >  2:418153/1‑52 (MQ=255)

                                                                                                                      aTAAACAACATACCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAAc                                                                                      <  1:418153/52‑1 (MQ=255)

TGTCCAGCAACGCCGGAGCCTGTGCCGTGGCCTGCTGCCAGATTTTCACCTGCTGATAATTGCCAGTCTGGTAGTAGCTGACGCCAGCCACAATTAACGCCACCACAATACCCGGCAGATAAACAACATATCCGGCACGCTTACCTTCCGGCACGCTTTGTTCAGGAAACGCTTCCGGCACCACGCGTACCCGACGCCGCGAGCGGGCGTATATGACCCAACCGCCAATGCCAATAGCCACTACTGGCAGCACC  >  NC_000913/2291843‑2292096

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A